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Conserved domains on  [gi|1039764772|ref|XP_017175162|]
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ATPase family gene 2 protein homolog A isoform X3 [Mus musculus]

Protein Classification

CDC48 family AAA ATPase( domain architecture ID 1001098)

CDC48 family AAA ATPase is involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus; similar to yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein)

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CDC48 super family cl36852
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 1-466 0e+00

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


The actual alignment was detected with superfamily member TIGR01243:

Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 551.82  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIGSEGsegRVLVLGATNRPQ 80
Cdd:TIGR01243 249 MSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRG---RVIVIGATNRPD 325

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772  81 ALDAALRRPGRFDKEIEIGIPNAQDRLDILQKLLRRVPhLLTKAELLRLANNAHGYVGADLKALCNEAGLHALRRVLRKQ 160
Cdd:TIGR01243 326 ALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMP-LAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFIREG 404

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 161 PNLPDSK-----VAGMVKITLNDFLQGMNDIRPSAMREVAIDVPNVSWSDIGGLENIKLKLKQAVEWPLKHPKSFNRMGI 235
Cdd:TIGR01243 405 KINFEAEeipaeVLKELKVTMKDFMEALKMVEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGI 484

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 236 QPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFRKARAVAPSIIFFDELDALAVERGS 315
Cdd:TIGR01243 485 RPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGA 564

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 316 SSGAgNVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREILNLQFHSMPISNE 395
Cdd:TIGR01243 565 RFDT-SVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAED 643

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 396 VDLDELVLQTDTYSGAEIIAVCKEAALLALEENIKADC----------------IMKRHFTQALSIVTPRIPESLRRFYE 459
Cdd:TIGR01243 644 VDLEELAEMTEGYTGADIEAVCREAAMAALRESIGSPAkeklevgeeeflkdlkVEMRHFLEALKKVKPSVSKEDMLRYE 723


                  ....*..
gi 1039764772 460 DYQEKSG 466
Cdd:TIGR01243 724 RLAKELK 730
 
Name Accession Description Interval E-value
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 1-466 0e+00

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 551.82  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIGSEGsegRVLVLGATNRPQ 80
Cdd:TIGR01243 249 MSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRG---RVIVIGATNRPD 325

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772  81 ALDAALRRPGRFDKEIEIGIPNAQDRLDILQKLLRRVPhLLTKAELLRLANNAHGYVGADLKALCNEAGLHALRRVLRKQ 160
Cdd:TIGR01243 326 ALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMP-LAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFIREG 404

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 161 PNLPDSK-----VAGMVKITLNDFLQGMNDIRPSAMREVAIDVPNVSWSDIGGLENIKLKLKQAVEWPLKHPKSFNRMGI 235
Cdd:TIGR01243 405 KINFEAEeipaeVLKELKVTMKDFMEALKMVEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGI 484

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 236 QPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFRKARAVAPSIIFFDELDALAVERGS 315
Cdd:TIGR01243 485 RPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGA 564

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 316 SSGAgNVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREILNLQFHSMPISNE 395
Cdd:TIGR01243 565 RFDT-SVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAED 643

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 396 VDLDELVLQTDTYSGAEIIAVCKEAALLALEENIKADC----------------IMKRHFTQALSIVTPRIPESLRRFYE 459
Cdd:TIGR01243 644 VDLEELAEMTEGYTGADIEAVCREAAMAALRESIGSPAkeklevgeeeflkdlkVEMRHFLEALKKVKPSVSKEDMLRYE 723


                  ....*..
gi 1039764772 460 DYQEKSG 466
Cdd:TIGR01243 724 RLAKELK 730
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 146-449 5.70e-116

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 343.53  E-value: 5.70e-116
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 146 NEAGLHALRRVLRKQPNLPDSKVAGMVKITLNDFLQGMNDIRPSAMREVaidvPNVSWSDIGGLENIKLKLKQAVEWPLK 225
Cdd:COG1222    24 RLGVELALLLQPVKALELLEEAPALLLNDANLTQKRLGTPRGTAVPAES----PDVTFDDIGGLDEQIEEIREAVELPLK 99

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 226 HPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFRKARAVAPSIIFFDE 305
Cdd:COG1222   100 NPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSKYIGEGARNVREVFELAREKAPSIIFIDE 179

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 306 LDALAVERGSSSGAGNVaDRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREILNL 385
Cdd:COG1222   180 IDAIAARRTDDGTSGEV-QRTVNQLLAELDGFESRGDVLIIAATNRPDLLDPALLRPGRFDRVIEVPLPDEEAREEILKI 258

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1039764772 386 QFHSMPISNEVDLDELVLQTDTYSGAEIIAVCKEAALLALEEniKADCIMKRHFTQALSIVTPR 449
Cdd:COG1222   259 HLRDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGMFAIRE--GRDTVTMEDLEKAIEKVKKK 320
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 212-371 1.06e-105

second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 311.14  E-value: 1.06e-105
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 212 IKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFR 291
Cdd:cd19511     1 VKRELKEAVEWPLKHPDAFKRLGIRPPKGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGESERAVREIFQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 292 KARAVAPSIIFFDELDALAVERGSSSGaGNVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIYV 371
Cdd:cd19511    81 KARQAAPCIIFFDEIDSLAPRRGQSDS-SGVTDRVVSQLLTELDGIESLKGVVVIAATNRPDMIDPALLRPGRLDKLIYV 159
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 185-443 2.00e-96

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 295.59  E-value: 2.00e-96
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 185 DIRPSAMrEVaIDVPNVSWSDIGGLENIKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGL 264
Cdd:PRK03992  114 DPRVQAM-EV-IESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNA 191

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 265 NFLAIKGPELMNKYVGESERAVREIFRKARAVAPSIIFFDELDALAVER--GSSSGAGNVaDRVLAQLLTEMDGIEQLKN 342
Cdd:PRK03992  192 TFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRtdSGTSGDREV-QRTLMQLLAEMDGFDPRGN 270

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 343 VTVLAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREILNLQFHSMPISNEVDLDELVLQTDTYSGAEIIAVCKEAAL 422
Cdd:PRK03992  271 VKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGM 350

                         250       260
                  ....*....|....*....|.
gi 1039764772 423 LALEENikADCIMKRHFTQAL 443
Cdd:PRK03992  351 FAIRDD--RTEVTMEDFLKAI 369
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 241-373 2.59e-53

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 175.09  E-value: 2.59e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 241 VLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFRKARAVAPSIIFFDELDALAVERGSSSgaG 320
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGG--D 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1039764772 321 NVADRVLAQLLTEMDGIEQLK-NVTVLAATNRPDRIDKALMrpGRIDRIIYVPL 373
Cdd:pfam00004  79 SESRRVVNQLLTELDGFTSSNsKVIVIAATNRPDKLDPALL--GRFDRIIEFPL 130
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 237-375 9.60e-17

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 77.03  E-value: 9.60e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772  237 PPKGVLLYGPPGCSKTMIAKALANESGLN---FLAIKGPELM--------------NKYVGESERAVREIFRKARAVAPS 299
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPgggVIYIDGEDILeevldqllliivggKKASGSGELRLRLALALARKLKPD 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039764772  300 IIFFDELDALAVERGSssgagnvADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPgRIDRIIYVPLPD 375
Cdd:smart00382  81 VLILDEITSLLDAEQE-------ALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
 
Name Accession Description Interval E-value
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 1-466 0e+00

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 551.82  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIGSEGsegRVLVLGATNRPQ 80
Cdd:TIGR01243 249 MSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRG---RVIVIGATNRPD 325

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772  81 ALDAALRRPGRFDKEIEIGIPNAQDRLDILQKLLRRVPhLLTKAELLRLANNAHGYVGADLKALCNEAGLHALRRVLRKQ 160
Cdd:TIGR01243 326 ALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMP-LAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFIREG 404

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 161 PNLPDSK-----VAGMVKITLNDFLQGMNDIRPSAMREVAIDVPNVSWSDIGGLENIKLKLKQAVEWPLKHPKSFNRMGI 235
Cdd:TIGR01243 405 KINFEAEeipaeVLKELKVTMKDFMEALKMVEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGI 484

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 236 QPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFRKARAVAPSIIFFDELDALAVERGS 315
Cdd:TIGR01243 485 RPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGA 564

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 316 SSGAgNVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREILNLQFHSMPISNE 395
Cdd:TIGR01243 565 RFDT-SVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAED 643

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 396 VDLDELVLQTDTYSGAEIIAVCKEAALLALEENIKADC----------------IMKRHFTQALSIVTPRIPESLRRFYE 459
Cdd:TIGR01243 644 VDLEELAEMTEGYTGADIEAVCREAAMAALRESIGSPAkeklevgeeeflkdlkVEMRHFLEALKKVKPSVSKEDMLRYE 723


                  ....*..
gi 1039764772 460 DYQEKSG 466
Cdd:TIGR01243 724 RLAKELK 730
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 146-449 5.70e-116

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 343.53  E-value: 5.70e-116
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 146 NEAGLHALRRVLRKQPNLPDSKVAGMVKITLNDFLQGMNDIRPSAMREVaidvPNVSWSDIGGLENIKLKLKQAVEWPLK 225
Cdd:COG1222    24 RLGVELALLLQPVKALELLEEAPALLLNDANLTQKRLGTPRGTAVPAES----PDVTFDDIGGLDEQIEEIREAVELPLK 99

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 226 HPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFRKARAVAPSIIFFDE 305
Cdd:COG1222   100 NPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSKYIGEGARNVREVFELAREKAPSIIFIDE 179

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 306 LDALAVERGSSSGAGNVaDRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREILNL 385
Cdd:COG1222   180 IDAIAARRTDDGTSGEV-QRTVNQLLAELDGFESRGDVLIIAATNRPDLLDPALLRPGRFDRVIEVPLPDEEAREEILKI 258

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1039764772 386 QFHSMPISNEVDLDELVLQTDTYSGAEIIAVCKEAALLALEEniKADCIMKRHFTQALSIVTPR 449
Cdd:COG1222   259 HLRDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGMFAIRE--GRDTVTMEDLEKAIEKVKKK 320
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 212-371 1.06e-105

second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 311.14  E-value: 1.06e-105
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 212 IKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFR 291
Cdd:cd19511     1 VKRELKEAVEWPLKHPDAFKRLGIRPPKGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGESERAVREIFQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 292 KARAVAPSIIFFDELDALAVERGSSSGaGNVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIYV 371
Cdd:cd19511    81 KARQAAPCIIFFDEIDSLAPRRGQSDS-SGVTDRVVSQLLTELDGIESLKGVVVIAATNRPDMIDPALLRPGRLDKLIYV 159
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 185-443 2.00e-96

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 295.59  E-value: 2.00e-96
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 185 DIRPSAMrEVaIDVPNVSWSDIGGLENIKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGL 264
Cdd:PRK03992  114 DPRVQAM-EV-IESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNA 191

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 265 NFLAIKGPELMNKYVGESERAVREIFRKARAVAPSIIFFDELDALAVER--GSSSGAGNVaDRVLAQLLTEMDGIEQLKN 342
Cdd:PRK03992  192 TFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRtdSGTSGDREV-QRTLMQLLAEMDGFDPRGN 270

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 343 VTVLAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREILNLQFHSMPISNEVDLDELVLQTDTYSGAEIIAVCKEAAL 422
Cdd:PRK03992  271 VKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGM 350

                         250       260
                  ....*....|....*....|.
gi 1039764772 423 LALEENikADCIMKRHFTQAL 443
Cdd:PRK03992  351 FAIRDD--RTEVTMEDFLKAI 369
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 64-443 2.48e-92

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 285.65  E-value: 2.48e-92
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772  64 EGSEGRVLVLGATNRPQALDAALRRPGRFDKEIEIGIPNAQDRLDILQKLLRRVPHLLTKAELLRLANNAHGYVGADLKA 143
Cdd:COG0464    19 DDAALRLLLLLLLALAAALLLLLLLLLLLLLALLLVELLLLLLSGALAALLLLALLLLALLALLAALLSALELLLLGELL 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 144 LCNEAGLHALRRVLRKQPNLPDSKVAGMVKITLNDFLQGMNDIRPsaMREVAIDVPNVSWSDIGGLENIKLKLKQAVEWP 223
Cdd:COG0464    99 LLLLLLLLLLLLLLDLERALLELLRESAEALALAAPLVTYEDIGG--LEEELLELREAILDDLGGLEEVKEELRELVALP 176

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 224 LKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFRKARAVAPSIIFF 303
Cdd:COG0464   177 LKRPELREEYGLPPPRGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVSKYVGETEKNLREVFDKARGLAPCVLFI 256

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 304 DELDALAVERGSSSGAgnVADRVLAQLLTEMDGIEqlKNVTVLAATNRPDRIDKALMRpgRIDRIIYVPLPDAATRREIL 383
Cdd:COG0464   257 DEADALAGKRGEVGDG--VGRRVVNTLLTEMEELR--SDVVVIAATNRPDLLDPALLR--RFDEIIFFPLPDAEERLEIF 330

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 384 NLQFHSMPISNEVDLDELVLQTDTYSGAEIIAVCKEAALLALEENikADCIMKRHFTQAL 443
Cdd:COG0464   331 RIHLRKRPLDEDVDLEELAEATEGLSGADIRNVVRRAALQALRLG--REPVTTEDLLEAL 388
26Sp45 TIGR01242
26S proteasome subunit P45 family; Many proteins may score above the trusted cutoff because an ...
 174-427 3.25e-84

26S proteasome subunit P45 family; Many proteins may score above the trusted cutoff because an internal


Pssm-ID: 130309 [Multi-domain]  Cd Length: 364  Bit Score: 263.58  E-value: 3.25e-84
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 174 ITLNDFLQGMNDIRPSAMrEVaIDVPNVSWSDIGGLENIKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTM 253
Cdd:TIGR01242  94 LTIVDVLPTSKDPLVKGM-EV-EERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTL 171

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 254 IAKALANESGLNFLAIKGPELMNKYVGESERAVREIFRKARAVAPSIIFFDELDALAVERGSSSGAGN-VADRVLAQLLT 332
Cdd:TIGR01242 172 LAKAVAHETNATFIRVVGSELVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDrEVQRTLMQLLA 251

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 333 EMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREILNLQFHSMPISNEVDLDELVLQTDTYSGAE 412
Cdd:TIGR01242 252 ELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEGASGAD 331

                         250
                  ....*....|....*
gi 1039764772 413 IIAVCKEAALLALEE 427
Cdd:TIGR01242 332 LKAICTEAGMFAIRE 346
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 169-448 8.24e-84

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 272.94  E-value: 8.24e-84
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 169 AGMVKITLNDFLQgmndIRPSAMRE-VAIDVPNVSWSDIGGLENIKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPP 247
Cdd:TIGR01243 146 AGFVYVTEATEVE----IREKPVREeIERKVPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPP 221

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 248 GCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFRKARAVAPSIIFFDELDALAVERGSSSgaGNVADRVL 327
Cdd:TIGR01243 222 GTGKTLLAKAVANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVT--GEVEKRVV 299

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 328 AQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREILNLQFHSMPISNEVDLDELVLQTDT 407
Cdd:TIGR01243 300 AQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHG 379

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1039764772 408 YSGAEIIAVCKEAALLALEE-------NIKADCI----------MKRHFTQALSIVTP 448
Cdd:TIGR01243 380 FVGADLAALAKEAAMAALRRfiregkiNFEAEEIpaevlkelkvTMKDFMEALKMVEP 437
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 212-371 9.12e-82

second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ATPase domains; The Valosin-containing protein-like ATPase of Thermoplasma acidophilum (VAT), is an archaeal homolog of the ubiquitous Cdc48/p97. It is a protein unfoldase that functions in concert with the 20S proteasome by unfolding proteasome substrates and passing them on for degradation. VAT forms a homohexamer, each monomer contains two tandem ATPase domains, referred to as D1 and D2, and an N-terminal domain. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410937 [Multi-domain]  Cd Length: 159  Bit Score: 249.72  E-value: 9.12e-82
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 212 IKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFR 291
Cdd:cd19529     1 VKQELKEAVEWPLLKPEVFKRLGIRPPKGILLYGPPGTGKTLLAKAVATESNANFISVKGPELLSKWVGESEKAIREIFR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 292 KARAVAPSIIFFDELDALAVERGSSSGAGnVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIYV 371
Cdd:cd19529    81 KARQVAPCVIFFDEIDSIAPRRGTTGDSG-VTERVVNQLLTELDGLEEMNGVVVIAATNRPDIIDPALLRAGRFDRLIYI 159
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 197-428 8.60e-80

26S protease regulatory subunit 6B-like protein; Provisional


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 253.15  E-value: 8.60e-80
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 197 DVPNVSWSDIGGLENIKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMN 276
Cdd:PTZ00454  138 EKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQ 217

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 277 KYVGESERAVREIFRKARAVAPSIIFFDELDALAVER-GSSSGAGNVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRI 355
Cdd:PTZ00454  218 KYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRfDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTL 297

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1039764772 356 DKALMRPGRIDRIIYVPLPDAATRREILNLQFHSMPISNEVDLDELVLQTDTYSGAEIIAVCKEAALLALEEN 428
Cdd:PTZ00454  298 DPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVRKN 370
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 212-371 3.39e-78

second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP in metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the second of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r2-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410936 [Multi-domain]  Cd Length: 161  Bit Score: 240.88  E-value: 3.39e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 212 IKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFR 291
Cdd:cd19528     1 VKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVRDIFD 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 292 KARAVAPSIIFFDELDALAVERGSSSG-AGNVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIY 370
Cdd:cd19528    81 KARAAAPCVLFFDELDSIAKARGGNIGdAGGAADRVINQILTEMDGMNTKKNVFIIGATNRPDIIDPAILRPGRLDQLIY 160


                  .
gi 1039764772 371 V 371
Cdd:cd19528   161 I 161
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 199-427 6.26e-77

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 246.99  E-value: 6.26e-77
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 199 PNVSWSDIGGLENIKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKY 278
Cdd:PTZ00361  178 PLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKY 257

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 279 VGESERAVREIFRKARAVAPSIIFFDELDALAVER-GSSSGAGNVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDK 357
Cdd:PTZ00361  258 LGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRyDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDP 337

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 358 ALMRPGRIDRIIYVPLPDAATRREILNLQFHSMPISNEVDLDELVLQTDTYSGAEIIAVCKEAALLALEE 427
Cdd:PTZ00361  338 ALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALRE 407
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 205-371 1.16e-74

first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 231.80  E-value: 1.16e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 205 DIGGLENIKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESER 284
Cdd:cd19503     1 DIGGLDEQIASLKELIELPLKYPELFRALGLKPPRGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVSKYLGESEK 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 285 AVREIFRKARAVAPSIIFFDELDALAVERGSSSGAgnVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGR 364
Cdd:cd19503    81 NLREIFEEARSHAPSIIFIDEIDALAPKREEDQRE--VERRVVAQLLTLMDGMSSRGKVVVIAATNRPDAIDPALRRPGR 158


                  ....*..
gi 1039764772 365 IDRIIYV 371
Cdd:cd19503   159 FDREVEI 165
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 202-371 3.90e-72

proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily contains ATPase subunits of the eukaryotic 26S proteasome, and of the archaeal proteasome which carry out ATP-dependent degradation of substrates of the ubiquitin-proteasome pathway. The eukaryotic 26S proteasome consists of a proteolytic 20S core particle (CP), and a 19S regulatory particle (RP) which provides the ATP-dependence and the specificity for ubiquitinated proteins. In the archaea the RP is a homohexameric complex of proteasome-activating nucleotidase (PAN). This subfamily also includes various eukaryotic 26S subunits including, proteasome 26S subunit, ATPase 2 (PSMC2, also known as S7 and MSS1) which is a member of the 19S RP and has a chaperone like activity; and proteasome 20S subunit alpha 6 (PSMA6, also known as IOTA, p27K, and PROS27) which is a member of the 20S CP. This RecA-like_PAN subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410910 [Multi-domain]  Cd Length: 171  Bit Score: 225.68  E-value: 3.90e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 202 SWSDIGGLENIKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGE 281
Cdd:cd19502     1 TYEDIGGLDEQIREIREVVELPLKHPELFEELGIEPPKGVLLYGPPGTGKTLLAKAVANHTDATFIRVVGSELVQKYIGE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 282 SERAVREIFRKARAVAPSIIFFDELDALAVER-GSSSGAGNVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALM 360
Cdd:cd19502    81 GARLVRELFEMAREKAPSIIFIDEIDAIGAKRfDSGTGGDREVQRTMLELLNQLDGFDPRGNIKVIMATNRPDILDPALL 160

                         170
                  ....*....|.
gi 1039764772 361 RPGRIDRIIYV 371
Cdd:cd19502   161 RPGRFDRKIEF 171
FtsH_fam TIGR01241
ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct ...
 179-443 5.86e-72

ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH. [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]


Pssm-ID: 273520 [Multi-domain]  Cd Length: 495  Bit Score: 235.64  E-value: 5.86e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 179 FLQGMNDIRPSAM-------REVAIDVPNVSWSDIGGLENIKLKLKQAVEWpLKHPKSFNRMGIQPPKGVLLYGPPGCSK 251
Cdd:TIGR01241  23 FRRQMQGGGGRAFsfgkskaKLLNEEKPKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGK 101

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 252 TMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFRKARAVAPSIIFFDELDALAVERGSSSGAGN-VADRVLAQL 330
Cdd:TIGR01241 102 TLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNdEREQTLNQL 181

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 331 LTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREILNLQFHSMPISNEVDLDELVLQTDTYSG 410
Cdd:TIGR01241 182 LVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSG 261

                         250       260       270
                  ....*....|....*....|....*....|...
gi 1039764772 411 AEIIAVCKEAALLALEENIKAdcIMKRHFTQAL 443
Cdd:TIGR01241 262 ADLANLLNEAALLAARKNKTE--ITMNDIEEAI 292
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 209-371 1.43e-70

second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410938 [Multi-domain]  Cd Length: 161  Bit Score: 221.21  E-value: 1.43e-70
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 209 LENIKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVRE 288
Cdd:cd19530     1 LDHVREELTMSILRPIKRPDIYKALGIDLPTGVLLYGPPGCGKTLLAKAVANESGANFISVKGPELLNKYVGESERAVRQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 289 IFRKARAVAPSIIFFDELDALAVERGssSGAGNVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRI 368
Cdd:cd19530    81 VFQRARASAPCVIFFDEVDALVPKRG--DGGSWASERVVNQLLTEMDGLEERSNVFVIAATNRPDIIDPAMLRPGRLDKT 158


                  ...
gi 1039764772 369 IYV 371
Cdd:cd19530   159 LYV 161
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 205-372 1.09e-68

first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r1-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410927 [Multi-domain]  Cd Length: 166  Bit Score: 216.53  E-value: 1.09e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 205 DIGGLENIKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESER 284
Cdd:cd19519     1 DIGGCRKQLAQIREMVELPLRHPELFKAIGIKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESES 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 285 AVREIFRKARAVAPSIIFFDELDALAVERGSSSgaGNVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGR 364
Cdd:cd19519    81 NLRKAFEEAEKNAPAIIFIDEIDAIAPKREKTH--GEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGR 158


                  ....*...
gi 1039764772 365 IDRIIYVP 372
Cdd:cd19519   159 FDREIDIG 166
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 212-370 6.36e-68

second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as Peroxin-1)/PEX6 is a protein unfoldase; PEX1 and PEX6 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. PEX-1 is required for stability of PEX5. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410934 [Multi-domain]  Cd Length: 158  Bit Score: 214.21  E-value: 6.36e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 212 IKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFR 291
Cdd:cd19526     1 VKKALEETIEWPSKYPKIFASSPLRLRSGILLYGPPGCGKTLLASAIASECGLNFISVKGPELLNKYIGASEQNVRDLFS 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1039764772 292 KARAVAPSIIFFDELDALAVERGSSSGAgnVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIY 370
Cdd:cd19526    81 RAQSAKPCILFFDEFDSIAPKRGHDSTG--VTDRVVNQLLTQLDGVEGLDGVYVLAATSRPDLIDPALLRPGRLDKLVY 157
pup_AAA TIGR03689
proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some ...
 197-383 3.61e-66

proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity. [Protein fate, Degradation of proteins, peptides, and glycopeptides]


Pssm-ID: 200312 [Multi-domain]  Cd Length: 512  Bit Score: 221.12  E-value: 3.61e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 197 DVPNVSWSDIGGLENIKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALAN-------ESGLN---F 266
Cdd:TIGR03689 175 EVPDVTYADIGGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLLYGPPGCGKTLIAKAVANslaarigAEGGGksyF 254

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 267 LAIKGPELMNKYVGESERAVREIFRKARAVA----PSIIFFDELDALAVERGS--SSgagNVADRVLAQLLTEMDGIEQL 340
Cdd:TIGR03689 255 LNIKGPELLNKYVGETERQIRLIFQRAREKAsegrPVIVFFDEMDSLFRTRGSgvSS---DVETTVVPQLLAEIDGVESL 331

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1039764772 341 KNVTVLAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREIL 383
Cdd:TIGR03689 332 DNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIF 374
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 201-371 1.00e-65

ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. It is anchored to the cytoplasmic membrane such that the amino- and carboxy-termini are exposed to the cytoplasm. It presents a membrane-bound hexameric structure that is able to unfold and degrade protein substrates. It is comprised of an N-terminal transmembrane region and the larger C-terminal cytoplasmic region, which consists of an ATPase domain and a protease domain. This RecA-Like FTsH subfamily represents the ATPase domain, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410909 [Multi-domain]  Cd Length: 171  Bit Score: 209.01  E-value: 1.00e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 201 VSWSDIGGLENIKLKLKQAVEWpLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVG 280
Cdd:cd19501     1 VTFKDVAGCEEAKEELKEVVEF-LKNPEKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVG 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 281 ESERAVREIFRKARAVAPSIIFFDELDALAVERGSSSGAGN-VADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKAL 359
Cdd:cd19501    80 VGASRVRDLFEQAKKNAPCIVFIDEIDAVGRKRGAGLGGGHdEREQTLNQLLVEMDGFESNTGVIVIAATNRPDVLDPAL 159

                         170
                  ....*....|..
gi 1039764772 360 MRPGRIDRIIYV 371
Cdd:cd19501   160 LRPGRFDRQVYV 171
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
199-443 3.73e-65

ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 219.91  E-value: 3.73e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 199 PNVSWSDIGGLENIKLKLKQAVEWpLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKY 278
Cdd:COG0465   137 PKVTFDDVAGVDEAKEELQEIVDF-LKDPEKFTRLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMF 215

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 279 VG--ESeRaVREIFRKARAVAPSIIFFDELDALAVERGSSSGAGNvaD---RVLAQLLTEMDGIEQLKNVTVLAATNRPD 353
Cdd:COG0465   216 VGvgAS-R-VRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGH--DereQTLNQLLVEMDGFEGNEGVIVIAATNRPD 291

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 354 RIDKALMRPGRIDRIIYVPLPDAATRREILNLQFHSMPISNEVDLDELVLQTDTYSGAEIIAVCKEAALLALEENikADC 433
Cdd:COG0465   292 VLDPALLRPGRFDRQVVVDLPDVKGREAILKVHARKKPLAPDVDLEVIARRTPGFSGADLANLVNEAALLAARRN--KKA 369

                         250
                  ....*....|
gi 1039764772 434 IMKRHFTQAL 443
Cdd:COG0465   370 VTMEDFEEAI 379
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 212-371 1.97e-63

proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 202.51  E-value: 1.97e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 212 IKLKLKQAVEWPLKHPKSFnRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFR 291
Cdd:cd19481     1 LKASLREAVEAPRRGSRLR-RYGLGLPKGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLSKYVGESEKNLRKIFE 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 292 KARAVAPSIIFFDELDALAVERGSSSGAGnVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIYV 371
Cdd:cd19481    80 RARRLAPCILFIDEIDAIGRKRDSSGESG-ELRRVLNQLLTELDGVNSRSKVLVIAATNRPDLLDPALLRPGRFDEVIEF 158
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
203-445 5.53e-60

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 196.64  E-value: 5.53e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 203 WSDIGGLENIKLKLKQAVEWpLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGES 282
Cdd:COG1223     1 LDDVVGQEEAKKKLKLIIKE-LRRRENLRKFGLWPPRKILFYGPPGTGKTMLAEALAGELKLPLLTVRLDSLIGSYLGET 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 283 ERAVREIFRKARAvAPSIIFFDELDALAVERGSSSGAGNVAdRVLAQLLTEMDGIEQlkNVTVLAATNRPDRIDKALMRp 362
Cdd:COG1223    80 ARNLRKLFDFARR-APCVIFFDEFDAIAKDRGDQNDVGEVK-RVVNALLQELDGLPS--GSVVIAATNHPELLDSALWR- 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 363 gRIDRIIYVPLPDAATRREILNLQFHSMPISNEVDLDELVLQTDTYSGAEIIAVCKEAALLALEENikADCIMKRHFTQA 442
Cdd:COG1223   155 -RFDEVIEFPLPDKEERKEILELNLKKFPLPFELDLKKLAKKLEGLSGADIEKVLKTALKKAILED--REKVTKEDLEEA 231


                  ...
gi 1039764772 443 LSI 445
Cdd:COG1223   232 LKQ 234
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 212-371 1.58e-58

second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as Peroxin61)/PEX1 is a protein unfoldase; PEX6 and PEX1 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. This subfamily represents the second ATPase domain of PEX6. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410935 [Multi-domain]  Cd Length: 160  Bit Score: 190.03  E-value: 1.58e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 212 IKLKLKQAVEWPLKHPKSFNRmGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFR 291
Cdd:cd19527     1 VKKEILDTIQLPLEHPELFSS-GLRKRSGILLYGPPGTGKTLLAKAIATECSLNFLSVKGPELINMYIGESEANVREVFQ 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 292 KARAVAPSIIFFDELDALAVERGSSSGAGNVADRVLAQLLTEMDGIEQ-LKNVTVLAATNRPDRIDKALMRPGRIDRIIY 370
Cdd:cd19527    80 KARDAKPCVIFFDELDSLAPSRGNSGDSGGVMDRVVSQLLAELDGMSSsGQDVFVIGATNRPDLLDPALLRPGRFDKLLY 159


                  .
gi 1039764772 371 V 371
Cdd:cd19527   160 L 160
ftsH CHL00176
cell division protein; Validated
 201-443 2.36e-57

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 200.28  E-value: 2.36e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 201 VSWSDIGGLENIKLKLKQAVEWpLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVG 280
Cdd:CHL00176  180 ITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVG 258

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 281 ESERAVREIFRKARAVAPSIIFFDELDALAVERGSSSGAGN-VADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKAL 359
Cdd:CHL00176  259 VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNdEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAAL 338

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 360 MRPGRIDRIIYVPLPDAATRREILNLQFHSMPISNEVDLDELVLQTDTYSGAEIIAVCKEAALLALEENIKAdcIMKRHF 439
Cdd:CHL00176  339 LRPGRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAILTARRKKAT--ITMKEI 416


                  ....
gi 1039764772 440 TQAL 443
Cdd:CHL00176  417 DTAI 420
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
189-428 1.72e-54

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 192.56  E-value: 1.72e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 189 SAMREVAIDVPNVSWSDIGGLENIKLKLKQAVEWpLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLA 268
Cdd:PRK10733  137 SKARMLTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFT 215

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 269 IKGPELMNKYVGESERAVREIFRKARAVAPSIIFFDELDALAVERGSSSGAG-NVADRVLAQLLTEMDGIEQLKNVTVLA 347
Cdd:PRK10733  216 ISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGhDEREQTLNQMLVEMDGFEGNEGIIVIA 295

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 348 ATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREILNLQFHSMPISNEVDLDELVLQTDTYSGAEIIAVCKEAALLALEE 427
Cdd:PRK10733  296 ATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARG 375


                  .
gi 1039764772 428 N 428
Cdd:PRK10733  376 N 376
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 241-373 2.59e-53

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 175.09  E-value: 2.59e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 241 VLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERAVREIFRKARAVAPSIIFFDELDALAVERGSSSgaG 320
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGG--D 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1039764772 321 NVADRVLAQLLTEMDGIEQLK-NVTVLAATNRPDRIDKALMrpGRIDRIIYVPL 373
Cdd:pfam00004  79 SESRRVVNQLLTELDGFTSSNsKVIVIAATNRPDKLDPALL--GRFDRIIEFPL 130
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 206-371 5.37e-52

ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This subfamily includes the ATPase domains of vacuolar protein sorting-associated protein 4 (VPS4), ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase), Katanin p60 ATPase-containing subunit A1 (KTNA1), Spastin, and Fidgetin-Like 1 (FIGL-1). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410917 [Multi-domain]  Cd Length: 163  Bit Score: 172.92  E-value: 5.37e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 206 IGGLENIKLKLKQAVEWPLKHPKSFnRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESERA 285
Cdd:cd19509     1 IAGLDDAKEALKEAVILPSLRPDLF-PGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEKI 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 286 VREIFRKARAVAPSIIFFDELDALAVERGSSSGAGNVadRVLAQLLTEMDGIEQLKN--VTVLAATNRPDRIDKALMRpg 363
Cdd:cd19509    80 VRALFALARELQPSIIFIDEIDSLLSERGSGEHEASR--RVKTEFLVQMDGVLNKPEdrVLVLGATNRPWELDEAFLR-- 155


                  ....*...
gi 1039764772 364 RIDRIIYV 371
Cdd:cd19509   156 RFEKRIYI 163
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 205-369 2.34e-50

first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410926 [Multi-domain]  Cd Length: 169  Bit Score: 169.12  E-value: 2.34e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 205 DIGGLENIKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESER 284
Cdd:cd19518     1 DIGGMDSTLKELCELLIHPILPPEYFQHLGVEPPRGVLLHGPPGCGKTMLANAIAGELKVPFLKISATEIVSGVSGESEE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 285 AVREIFRKARAVAPSIIFFDELDALAVERGSSSgaGNVADRVLAQLLTEMDGIEQLKN----VTVLAATNRPDRIDKALM 360
Cdd:cd19518    81 KIRELFDQAISNAPCIVFIDEIDAITPKRESAQ--REMERRIVSQLLTCMDELNNEKTaggpVLVIGATNRPDSLDPALR 158


                  ....*....
gi 1039764772 361 RPGRIDRII 369
Cdd:cd19518   159 RAGRFDREI 167
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 4-195 8.22e-49

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 170.19  E-value: 8.22e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   4 FYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVE-KRVVASLLTLMDGIGSEGSegrVLVLGATNRPQAL 82
Cdd:COG1222   152 YIGEGARNVREVFELAREKAPSIIFIDEIDAIAARRTDDGTSGEvQRTVNQLLAELDGFESRGD---VLIIAATNRPDLL 228

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772  83 DAALRRPGRFDKEIEIGIPNAQDRLDILQKLLRRVPhLLTKAELLRLANNAHGYVGADLKALCNEAGLHALRRvlrkqpn 162
Cdd:COG1222   229 DPALLRPGRFDRVIEVPLPDEEAREEILKIHLRDMP-LADDVDLDKLAKLTEGFSGADLKAIVTEAGMFAIRE------- 300

                         170       180       190
                  ....*....|....*....|....*....|...
gi 1039764772 163 lpdskvaGMVKITLNDFLQGMNDIRPSAMREVA 195
Cdd:COG1222   301 -------GRDTVTMEDLEKAIEKVKKKTETATN 326
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 205-370 1.23e-48

ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces cerevisiae Yta7 is a chromatin-associated AAA-ATPase involved in regulation of chromatin dynamics. Its human ortholog ANCCA/ATAD2 transcriptionally activates pathways of malignancy in a broad range of cancers. The RecA-like_Yta7 subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410925 [Multi-domain]  Cd Length: 170  Bit Score: 164.60  E-value: 1.23e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 205 DIGGLENIKLKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESG-----LNFLAIKGPELMNKYV 279
Cdd:cd19517     1 DIGGLSHYINQLKEMVFFPLLYPEVFAKFKITPPRGVLFHGPPGTGKTLMARALAAECSkggqkVSFFMRKGADCLSKWV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 280 GESERAVREIFRKARAVAPSIIFFDELDALAVERgsSSGAGNVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKAL 359
Cdd:cd19517    81 GEAERQLRLLFEEAYRMQPSIIFFDEIDGLAPVR--SSKQEQIHASIVSTLLALMDGLDNRGQVVVIGATNRPDALDPAL 158

                         170
                  ....*....|.
gi 1039764772 360 MRPGRIDRIIY 370
Cdd:cd19517   159 RRPGRFDREFY 169
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 1-98 4.14e-45

first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 155.14  E-value: 4.14e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIgseGSEGRVLVLGATNRPQ 80
Cdd:cd19503    71 VSKYLGESEKNLREIFEEARSHAPSIIFIDEIDALAPKREEDQREVERRVVAQLLTLMDGM---SSRGKVVVIAATNRPD 147

                          90
                  ....*....|....*...
gi 1039764772  81 ALDAALRRPGRFDKEIEI 98
Cdd:cd19503   148 AIDPALRRPGRFDREVEI 165
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 205-361 5.85e-44

ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase) is an ATPase that plays a critical role in regulating the surface expression of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors, thereby regulating synaptic plasticity, learning and memory. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 152.19  E-value: 5.85e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 205 DIGGLENIKLKLKQAVEWPLKHPKSFNRMGI-QPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESE 283
Cdd:cd19520     1 DIGGLDEVITELKELVILPLQRPELFDNSRLlQPPKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSSLTDKWYGESQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 284 RAVREIFRKARAVAPSIIFFDELDALAVERgsSSGAGNVADRVLAQLLTEMDGI--EQLKNVTVLAATNRPDRIDKALMR 361
Cdd:cd19520    81 KLVAAVFSLASKLQPSIIFIDEIDSFLRQR--SSTDHEATAMMKAEFMSLWDGLstDGNCRVIVMGATNRPQDLDEAILR 158
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 205-371 9.38e-44

Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is the catalytic subunit of the Katanin complex which is severs microtubules in an ATP-dependent manner, and is implicated in multiple aspects of microtubule dynamics. In addition to the p60 catalytic ATPase subunit, Katanin contains an accessory subunit (p80 or p80-like). The microtubule-severing activity of the ATPase is essential for female meiotic spindle assembly, and male gamete production; and the katanin complex severing microtubules is under tight regulation during the transition from the meiotic to mitotic stage to allow proper embryogenesis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410930 [Multi-domain]  Cd Length: 170  Bit Score: 151.68  E-value: 9.38e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 205 DIGGLENIKLKLKQAVEWPLKHPKSFNrmGIQPP-KGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESE 283
Cdd:cd19522     1 DIADLEEAKKLLEEAVVLPMWMPEFFK--GIRRPwKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKYRGESE 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 284 RAVREIFRKARAVAPSIIFFDELDALAVERGSSSgAGNVADRVLAQLLTEMDGI-------EQLKNVTVLAATNRPDRID 356
Cdd:cd19522    79 KLVRLLFEMARFYAPTTIFIDEIDSICSRRGTSE-EHEASRRVKSELLVQMDGVggasendDPSKMVMVLAATNFPWDID 157

                         170
                  ....*....|....*
gi 1039764772 357 KALMRpgRIDRIIYV 371
Cdd:cd19522   158 EALRR--RLEKRIYI 170
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 199-371 1.09e-43

ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein sorting-associated protein 4 (Vps4) is believed to be involved in intracellular protein transport out of a prevacuolar endosomal compartment. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410929 [Multi-domain]  Cd Length: 170  Bit Score: 151.55  E-value: 1.09e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 199 PNVSWSDIGGLENIKLKLKQAVEWPLKHPKSF--NRmgiQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMN 276
Cdd:cd19521     2 PNVKWEDVAGLEGAKEALKEAVILPVKFPHLFtgNR---KPWSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVS 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 277 KYVGESERAVREIFRKARAVAPSIIFFDELDALAVERGssSGAGNVADRVLAQLLTEMDGI-EQLKNVTVLAATNRPDRI 355
Cdd:cd19521    79 KWMGESEKLVKQLFAMARENKPSIIFIDEVDSLCGTRG--EGESEASRRIKTELLVQMNGVgNDSQGVLVLGATNIPWQL 156

                         170
                  ....*....|....*.
gi 1039764772 356 DKALMRpgRIDRIIYV 371
Cdd:cd19521   157 DSAIRR--RFEKRIYI 170
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 191-371 9.53e-42

ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; it may be involved in DNA double-strand break repair via homologous recombination. Caenorhabditis elegans FIGL-1 is a nuclear protein and controls the mitotic progression in the germ line and mouse FIGL-1 may be involved in the control of male meiosis. human FIGL-1 has been shown to be a centrosome protein involved in ciliogenesis perhaps as a microtubule-severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410933 [Multi-domain]  Cd Length: 186  Bit Score: 147.06  E-value: 9.53e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 191 MREVAIDVPNVSWSDIGGLENIKLKLKQAVEWPLKHPKSFNrmGIQ-PPKGVLLYGPPGCSKTMIAKALANESGLNFLAI 269
Cdd:cd19525     9 MSEIMDHGPPINWADIAGLEFAKKTIKEIVVWPMLRPDIFT--GLRgPPKGILLFGPPGTGKTLIGKCIASQSGATFFSI 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 270 KGPELMNKYVGESERAVREIFRKARAVAPSIIFFDELDALAVERGSSSGAGnvADRVLAQLLTEMDGIEQLKN--VTVLA 347
Cdd:cd19525    87 SASSLTSKWVGEGEKMVRALFSVARCKQPAVIFIDEIDSLLSQRGEGEHES--SRRIKTEFLVQLDGATTSSEdrILVVG 164

                         170       180
                  ....*....|....*....|....
gi 1039764772 348 ATNRPDRIDKALMRpgRIDRIIYV 371
Cdd:cd19525   165 ATNRPQEIDEAARR--RLVKRLYI 186
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 227-366 1.29e-41

first of two ATPase domains of NSF and SEC18, and similar ATPase domains; N-ethylmaleimide-sensitive factor (NSF) and Saccharomyces cerevisiae Vesicular-fusion protein Sec18, key factors for eukaryotic trafficking, are ATPases and SNARE disassembly chaperones. NSF/Sec18 activate or prime SNAREs, the terminal catalysts of membrane fusion. Sec18/NSF associates with SNARE complexes through binding Sec17/alpha-SNAP. Sec18 has an N-terminal cap domain and two nucleotide-binding domains (D1 and D2) which form the two rings of the hexameric complex. The hydrolysis of ATP by D1 generates most of the energy necessary to disassemble inactive SNARE bundles, while the D2 ring binds ATP to stabilize the homohexamer. This subfamily includes the first (D1) ATPase domain of NSF/Sec18, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410912 [Multi-domain]  Cd Length: 177  Bit Score: 146.10  E-value: 1.29e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 227 PKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANE-SGLNFLAIKGPELMNKYVGESERAVREIFRKA----RAVAPS-- 299
Cdd:cd19504    24 PEIVEQLGCKHVKGILLYGPPGTGKTLMARQIGKMlNAREPKIVNGPEILNKYVGESEANIRKLFADAeeeqRRLGANsg 103

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1039764772 300 --IIFFDELDALAVERGSSSGAGNVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRID 366
Cdd:cd19504   104 lhIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKIDGVEQLNNILVIGMTNRKDLIDEALLRPGRLE 172
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 1-99 1.45e-41

first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r1-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410927 [Multi-domain]  Cd Length: 166  Bit Score: 145.66  E-value: 1.45e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIgseGSEGRVLVLGATNRPQ 80
Cdd:cd19519    71 MSKLAGESESNLRKAFEEAEKNAPAIIFIDEIDAIAPKREKTHGEVERRIVSQLLTLMDGL---KQRAHVIVMAATNRPN 147

                          90
                  ....*....|....*....
gi 1039764772  81 ALDAALRRPGRFDKEIEIG 99
Cdd:cd19519   148 SIDPALRRFGRFDREIDIG 166
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 1-154 1.81e-40

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 149.68  E-value: 1.81e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIgsegsEGRVLVLGATNRPQ 80
Cdd:COG0464   228 VSKYVGETEKNLREVFDKARGLAPCVLFIDEADALAGKRGEVGDGVGRRVVNTLLTEMEEL-----RSDVVVIAATNRPD 302

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1039764772  81 ALDAALRRpgRFDKEIEIGIPNAQDRLDILQKLLRRVPhLLTKAELLRLANNAHGYVGADLKALCNEAGLHALR 154
Cdd:COG0464   303 LLDPALLR--RFDEIIFFPLPDAEERLEIFRIHLRKRP-LDEDVDLEELAEATEGLSGADIRNVVRRAALQALR 373
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 6-96 6.11e-36

first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410926 [Multi-domain]  Cd Length: 169  Bit Score: 130.60  E-value: 6.11e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   6 GETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIGSEGSEG-RVLVLGATNRPQALDA 84
Cdd:cd19518    76 GESEEKIRELFDQAISNAPCIVFIDEIDAITPKRESAQREMERRIVSQLLTCMDELNNEKTAGgPVLVIGATNRPDSLDP 155

                          90
                  ....*....|..
gi 1039764772  85 ALRRPGRFDKEI 96
Cdd:cd19518   156 ALRRAGRFDREI 167
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 205-371 2.48e-35

ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in microtubule dynamics; it specifically recognizes and cuts microtubules that are polyglutamylated. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410932 [Multi-domain]  Cd Length: 164  Bit Score: 128.81  E-value: 2.48e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 205 DIGGLENIKLKLKQAVEWPLKHPKSFNRMGiQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESER 284
Cdd:cd19524     1 DIAGQDLAKQALQEMVILPSLRPELFTGLR-APARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEK 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 285 AVREIFRKARAVAPSIIFFDELDALAVERgsSSGAGNVADRVLAQLLTEMDGIEQLKN--VTVLAATNRPDRIDKALMRp 362
Cdd:cd19524    80 LVRALFAVARELQPSIIFIDEVDSLLSER--SEGEHEASRRLKTEFLIEFDGVQSNGDdrVLVMGATNRPQELDDAVLR- 156


                  ....*....
gi 1039764772 363 gRIDRIIYV 371
Cdd:cd19524   157 -RFTKRVYV 164
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 205-371 1.65e-33

ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of photosynthesis in cyanobacteria, especially in CO2 uptake and utilization. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410915 [Multi-domain]  Cd Length: 161  Bit Score: 124.02  E-value: 1.65e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 205 DIGGLENIKlklkqavEWPLKHPKSFN----RMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVG 280
Cdd:cd19507     1 DVGGLDNLK-------DWLKKRKAAFSkqasAYGLPTPKGLLLVGIQGTGKSLTAKAIAGVWQLPLLRLDMGRLFGGLVG 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 281 ESERAVREIFRKARAVAPSIIFFDELDAlAVERGSSSGAGNVADRVLAQLLTEMDgiEQLKNVTVLAATNRPDRIDKALM 360
Cdd:cd19507    74 ESESRLRQMIQTAEAIAPCVLWIDEIEK-GFSNADSKGDSGTSSRVLGTFLTWLQ--EKKKPVFVVATANNVQSLPPELL 150

                         170
                  ....*....|.
gi 1039764772 361 RPGRIDRIIYV 371
Cdd:cd19507   151 RKGRFDEIFFV 161
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
1-148 3.18e-33

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 125.77  E-value: 3.18e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATlRHPSIIFIDELDALCpKREGAQSEVE--KRVVASLLTLMDGIGSEgsegrVLVLGATNR 78
Cdd:COG1223    72 IGSYLGETARNLRKLFDFAR-RAPCVIFFDEFDAIA-KDRGDQNDVGevKRVVNALLQELDGLPSG-----SVVIAATNH 144

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772  79 PQALDAALRRpgRFDKEIEIGIPNAQDRLDILQKLLRRVPhLLTKAELLRLANNAHGYVGADLKALCNEA 148
Cdd:COG1223   145 PELLDSALWR--RFDEVIEFPLPDKEERKEILELNLKKFP-LPFELDLKKLAKKLEGLSGADIEKVLKTA 211
ycf46 CHL00195
Ycf46; Provisional
 199-440 1.24e-30

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 123.98  E-value: 1.24e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 199 PNVSWSDIGGLENIKLKLKqavewplKHPKSFNRM----GIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPEL 274
Cdd:CHL00195  223 VNEKISDIGGLDNLKDWLK-------KRSTSFSKQasnyGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKL 295

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 275 MNKYVGESERAVREIFRKARAVAPSIIFFDELDAlAVERGSSSGAGNVADRVLAQLLTEMDgiEQLKNVTVLAATNRPDR 354
Cdd:CHL00195  296 FGGIVGESESRMRQMIRIAEALSPCILWIDEIDK-AFSNSESKGDSGTTNRVLATFITWLS--EKKSPVFVVATANNIDL 372

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 355 IDKALMRPGRIDRIIYVPLPDAATRREIlnLQFHSMPIS----NEVDLDELVLQTDTYSGAEIIAVCKEAALLALEENik 430
Cdd:CHL00195  373 LPLEILRKGRFDEIFFLDLPSLEEREKI--FKIHLQKFRpkswKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIAFYEK-- 448

                         250
                  ....*....|
gi 1039764772 431 adcimkRHFT 440
Cdd:CHL00195  449 ------REFT 452
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 1-98 1.24e-30

proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 115.84  E-value: 1.24e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREG-AQSEVEKRVVASLLTLMDGIgseGSEGRVLVLGATNRP 79
Cdd:cd19481    63 LSKYVGESEKNLRKIFERARRLAPCILFIDEIDAIGRKRDSsGESGELRRVLNQLLTELDGV---NSRSKVLVIAATNRP 139

                          90
                  ....*....|....*....
gi 1039764772  80 QALDAALRRPGRFDKEIEI 98
Cdd:cd19481   140 DLLDPALLRPGRFDEVIEF 158
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 4-187 1.60e-30

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 121.86  E-value: 1.60e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   4 FYGETeARL-RQIFAEATLRHPSIIFIDELDALCPKR----EGAQSEVEkRVVASLLTLMDGIGSEGsegRVLVLGATNR 78
Cdd:PRK03992  205 FIGEG-ARLvRELFELAREKAPSIIFIDEIDAIAAKRtdsgTSGDREVQ-RTLMQLLAEMDGFDPRG---NVKIIAATNR 279

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772  79 PQALDAALRRPGRFDKEIEIGIPNAQDRLDILQKLLRRVpHLLTKAELLRLANNAHGYVGADLKALCNEAGLHALRRvLR 158
Cdd:PRK03992  280 IDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKM-NLADDVDLEELAELTEGASGADLKAICTEAGMFAIRD-DR 357

                         170       180
                  ....*....|....*....|....*....
gi 1039764772 159 KQpnlpdskvagmvkITLNDFLQGMNDIR 187
Cdd:PRK03992  358 TE-------------VTMEDFLKAIEKVM 373
26Sp45 TIGR01242
26S proteasome subunit P45 family; Many proteins may score above the trusted cutoff because an ...
 3-186 8.73e-30

26S proteasome subunit P45 family; Many proteins may score above the trusted cutoff because an internal


Pssm-ID: 130309 [Multi-domain]  Cd Length: 364  Bit Score: 119.52  E-value: 8.73e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   3 QFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKR----EGAQSEVEkRVVASLLTLMDGIGSEGSegrVLVLGATNR 78
Cdd:TIGR01242 195 KYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRtdsgTSGDREVQ-RTLMQLLAELDGFDPRGN---VKVIAATNR 270

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772  79 PQALDAALRRPGRFDKEIEIGIPNAQDRLDILqKLLRRVPHLLTKAELLRLANNAHGYVGADLKALCNEAGLHALRRvlr 158
Cdd:TIGR01242 271 PDILDPALLRPGRFDRIIEVPLPDFEGRLEIL-KIHTRKMKLAEDVDLEAIAKMTEGASGADLKAICTEAGMFAIRE--- 346

                         170       180
                  ....*....|....*....|....*...
gi 1039764772 159 kqpnlpdskvaGMVKITLNDFLQGMNDI 186
Cdd:TIGR01242 347 -----------ERDYVTMDDFIKAVEKV 363
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 1-96 2.81e-29

second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 112.38  E-value: 2.81e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQS-EVEKRVVASLLTLMDGIgsEGSEGrVLVLGATNRP 79
Cdd:cd19511    64 FSKYVGESERAVREIFQKARQAAPCIIFFDEIDSLAPRRGQSDSsGVTDRVVSQLLTELDGI--ESLKG-VVVIAATNRP 140

                          90
                  ....*....|....*..
gi 1039764772  80 QALDAALRRPGRFDKEI 96
Cdd:cd19511   141 DMIDPALLRPGRLDKLI 157
FtsH_fam TIGR01241
ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct ...
 4-155 3.48e-29

ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH. [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]


Pssm-ID: 273520 [Multi-domain]  Cd Length: 495  Bit Score: 119.70  E-value: 3.48e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   4 FYGETEARLRQIFAEATLRHPSIIFIDELDALCPKRE----GAQSEVEkRVVASLLTLMDGIGseGSEGrVLVLGATNRP 79
Cdd:TIGR01241 128 FVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGaglgGGNDERE-QTLNQLLVEMDGFG--TNTG-VIVIAATNRP 203

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039764772  80 QALDAALRRPGRFDKEIEIGIPNAQDRLDILQKLLRRVPhLLTKAELLRLANNAHGYVGADLKALCNEAGLHALRR 155
Cdd:TIGR01241 204 DVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKK-LAPDVDLKAVARRTPGFSGADLANLLNEAALLAARK 278
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 4-99 5.14e-29

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 110.76  E-value: 5.14e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   4 FYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIgsEGSEGRVLVLGATNRPQALD 83
Cdd:pfam00004  38 YVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGGDSESRRVVNQLLTELDGF--TSSNSKVIVIAATNRPDKLD 115

                          90
                  ....*....|....*.
gi 1039764772  84 AALRrpGRFDKEIEIG 99
Cdd:pfam00004 116 PALL--GRFDRIIEFP 129
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
4-154 1.30e-27

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 116.29  E-value: 1.30e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   4 FYGETEARLRQIFAEATLRHPSIIFIDELDALCPKRE---GAQSEVEKRVVASLLTLMDGIgsEGSEGrVLVLGATNRPQ 80
Cdd:PRK10733  225 FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGaglGGGHDEREQTLNQMLVEMDGF--EGNEG-IIVIAATNRPD 301

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1039764772  81 ALDAALRRPGRFDKEIEIGIPNAQDRLDILQKLLRRVPhLLTKAELLRLANNAHGYVGADLKALCNEAGLHALR 154
Cdd:PRK10733  302 VLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVP-LAPDIDAAIIARGTPGFSGADLANLVNEAALFAAR 374
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 1-95 4.19e-27

ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces cerevisiae Yta7 is a chromatin-associated AAA-ATPase involved in regulation of chromatin dynamics. Its human ortholog ANCCA/ATAD2 transcriptionally activates pathways of malignancy in a broad range of cancers. The RecA-like_Yta7 subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410925 [Multi-domain]  Cd Length: 170  Bit Score: 106.82  E-value: 4.19e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIgseGSEGRVLVLGATNRPQ 80
Cdd:cd19517    76 LSKWVGEAERQLRLLFEEAYRMQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGL---DNRGQVVVIGATNRPD 152

                          90
                  ....*....|....*
gi 1039764772  81 ALDAALRRPGRFDKE 95
Cdd:cd19517   153 ALDPALRRPGRFDRE 167
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 207-373 8.55e-27

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 105.31  E-value: 8.55e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 207 GGLENIKLKLKQAVEWPlkhpksfnrmgiqPPKGVLLYGPPGCSKTMIAKALANES---GLNFLAIKGPELMNKYVGESE 283
Cdd:cd00009     1 VGQEEAIEALREALELP-------------PPKNLLLYGPPGTGKTTLARAIANELfrpGAPFLYLNASDLLEGLVVAEL 67

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 284 R---AVREIFRKARAVAPSIIFFDELDALAVErgsssgagnVADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALM 360
Cdd:cd00009    68 FghfLVRLLFELAEKAKPGVLFIDEIDSLSRG---------AQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRA 138

                         170
                  ....*....|...
gi 1039764772 361 RPGRIDRIIYVPL 373
Cdd:cd00009   139 LYDRLDIRIVIPL 151
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
10-155 1.74e-26

ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 112.44  E-value: 1.74e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772  10 ARLRQIFAEATLRHPSIIFIDELDALCPKR----EGAQSEVEkRVVASLLTLMDGIgsEGSEGrVLVLGATNRPQALDAA 85
Cdd:COG0465   221 SRVRDLFEQAKKNAPCIIFIDEIDAVGRQRgaglGGGHDERE-QTLNQLLVEMDGF--EGNEG-VIVIAATNRPDVLDPA 296

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772  86 LRRPGRFDKEIEIGIPNAQDRLDILQKLLRRVPhLLTKAELLRLANNAHGYVGADLKALCNEAGLHALRR 155
Cdd:COG0465   297 LLRPGRFDRQVVVDLPDVKGREAILKVHARKKP-LAPDVDLEVIARRTPGFSGADLANLVNEAALLAARR 365
ftsH CHL00176
cell division protein; Validated
 3-155 1.85e-26

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 112.84  E-value: 1.85e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   3 QFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKR----EGAQSEVEKrVVASLLTLMDGIgsEGSEGrVLVLGATNR 78
Cdd:CHL00176  255 MFVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRgagiGGGNDEREQ-TLNQLLTEMDGF--KGNKG-VIVIAATNR 330

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1039764772  79 PQALDAALRRPGRFDKEIEIGIPNAQDRLDILQKLLRRVPhLLTKAELLRLANNAHGYVGADLKALCNEAGLHALRR 155
Cdd:CHL00176  331 VDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKK-LSPDVSLELIARRTPGFSGADLANLLNEAAILTARR 406
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 205-361 1.92e-26

ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410931 [Multi-domain]  Cd Length: 163  Bit Score: 104.58  E-value: 1.92e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 205 DIGGLENIKLKLKQAVEWPLKHPKSFNRMgIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGESER 284
Cdd:cd19523     1 DIAGLGALKAAIKEEVLWPLLRPDAFSGL-LRLPRSILLFGPRGTGKTLLGRCLASQLGATFLRLRGSTLVAKWAGEGEK 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1039764772 285 AVREIFRKARAVAPSIIFFDELDALAVERGSSSGAGNvadRVLAQLLTEMDGI--EQLKNVTVLAATNRPDRIDKALMR 361
Cdd:cd19523    80 ILQASFLAARCRQPSVLFISDLDALLSSQDDEASPVG---RLQVELLAQLDGVlgSGEDGVLVVCTTSKPEEIDESLRR 155
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 1-98 1.20e-25

ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This subfamily includes the ATPase domains of vacuolar protein sorting-associated protein 4 (VPS4), ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase), Katanin p60 ATPase-containing subunit A1 (KTNA1), Spastin, and Fidgetin-Like 1 (FIGL-1). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410917 [Multi-domain]  Cd Length: 163  Bit Score: 102.43  E-value: 1.20e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIGSEgSEGRVLVLGATNRPQ 80
Cdd:cd19509    69 VSKWVGESEKIVRALFALARELQPSIIFIDEIDSLLSERGSGEHEASRRVKTEFLVQMDGVLNK-PEDRVLVLGATNRPW 147

                          90
                  ....*....|....*...
gi 1039764772  81 ALDAALRRpgRFDKEIEI 98
Cdd:cd19509   148 ELDEAFLR--RFEKRIYI 163
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 1-94 1.53e-23

second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410938 [Multi-domain]  Cd Length: 161  Bit Score: 96.79  E-value: 1.53e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIgsegsEGR--VLVLGATNR 78
Cdd:cd19530    67 LNKYVGESERAVRQVFQRARASAPCVIFFDEVDALVPKRGDGGSWASERVVNQLLTEMDGL-----EERsnVFVIAATNR 141

                          90
                  ....*....|....*.
gi 1039764772  79 PQALDAALRRPGRFDK 94
Cdd:cd19530   142 PDIIDPAMLRPGRLDK 157
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 1-98 4.01e-23

second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ATPase domains; The Valosin-containing protein-like ATPase of Thermoplasma acidophilum (VAT), is an archaeal homolog of the ubiquitous Cdc48/p97. It is a protein unfoldase that functions in concert with the 20S proteasome by unfolding proteasome substrates and passing them on for degradation. VAT forms a homohexamer, each monomer contains two tandem ATPase domains, referred to as D1 and D2, and an N-terminal domain. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410937 [Multi-domain]  Cd Length: 159  Bit Score: 95.25  E-value: 4.01e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKR-EGAQSEVEKRVVASLLTLMDGIGSEGSegrVLVLGATNRP 79
Cdd:cd19529    64 LSKWVGESEKAIREIFRKARQVAPCVIFFDEIDSIAPRRgTTGDSGVTERVVNQLLTELDGLEEMNG---VVVIAATNRP 140

                          90
                  ....*....|....*....
gi 1039764772  80 QALDAALRRPGRFDKEIEI 98
Cdd:cd19529   141 DIIDPALLRAGRFDRLIYI 159
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 1-98 1.18e-22

ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein sorting-associated protein 4 (Vps4) is believed to be involved in intracellular protein transport out of a prevacuolar endosomal compartment. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410929 [Multi-domain]  Cd Length: 170  Bit Score: 94.54  E-value: 1.18e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIGSEgSEGrVLVLGATNRPQ 80
Cdd:cd19521    77 VSKWMGESEKLVKQLFAMARENKPSIIFIDEVDSLCGTRGEGESEASRRIKTELLVQMNGVGND-SQG-VLVLGATNIPW 154

                          90
                  ....*....|....*...
gi 1039764772  81 ALDAALRRpgRFDKEIEI 98
Cdd:cd19521   155 QLDSAIRR--RFEKRIYI 170
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 3-154 3.36e-22

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 98.69  E-value: 3.36e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   3 QFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEK---RVVASLLTLMDGIGSEGSegrVLVLGATNRP 79
Cdd:PTZ00361  256 KYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKeiqRTMLELLNQLDGFDSRGD---VKVIMATNRI 332

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1039764772  80 QALDAALRRPGRFDKEIEIGIPNAQDRLDILQKLLRRVpHLLTKAELLRLANNAHGYVGADLKALCNEAGLHALR 154
Cdd:PTZ00361  333 ESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKM-TLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALR 406
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 3-155 3.55e-22

26S protease regulatory subunit 6B-like protein; Provisional


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 97.91  E-value: 3.55e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   3 QFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKR----EGAQSEVEkRVVASLLTLMDGIGSEGSegrVLVLGATNR 78
Cdd:PTZ00454  218 KYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRfdaqTGADREVQ-RILLELLNQMDGFDQTTN---VKVIMATNR 293

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1039764772  79 PQALDAALRRPGRFDKEIEIGIPNAQDRLDILQKLLRRVpHLLTKAELLRLANNAHGYVGADLKALCNEAGLHALRR 155
Cdd:PTZ00454  294 ADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKM-NLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVRK 369
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 1-98 4.08e-22

second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP in metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the second of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r2-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410936 [Multi-domain]  Cd Length: 161  Bit Score: 92.57  E-value: 4.08e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQ---SEVEKRVVASLLTLMDGIGSEGSegrVLVLGATN 77
Cdd:cd19528    64 LTMWFGESEANVRDIFDKARAAAPCVLFFDELDSIAKARGGNIgdaGGAADRVINQILTEMDGMNTKKN---VFIIGATN 140

                          90       100
                  ....*....|....*....|.
gi 1039764772  78 RPQALDAALRRPGRFDKEIEI 98
Cdd:cd19528   141 RPDIIDPAILRPGRLDQLIYI 161
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 4-98 1.42e-21

ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. It is anchored to the cytoplasmic membrane such that the amino- and carboxy-termini are exposed to the cytoplasm. It presents a membrane-bound hexameric structure that is able to unfold and degrade protein substrates. It is comprised of an N-terminal transmembrane region and the larger C-terminal cytoplasmic region, which consists of an ATPase domain and a protease domain. This RecA-Like FTsH subfamily represents the ATPase domain, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410909 [Multi-domain]  Cd Length: 171  Bit Score: 91.53  E-value: 1.42e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   4 FYGETEARLRQIFAEATLRHPSIIFIDELDALCPKRE----GAQSEVEkRVVASLLTLMDGIGSegSEGrVLVLGATNRP 79
Cdd:cd19501    77 FVGVGASRVRDLFEQAKKNAPCIVFIDEIDAVGRKRGaglgGGHDERE-QTLNQLLVEMDGFES--NTG-VIVIAATNRP 152

                          90
                  ....*....|....*....
gi 1039764772  80 QALDAALRRPGRFDKEIEI 98
Cdd:cd19501   153 DVLDPALLRPGRFDRQVYV 171
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 4-94 2.41e-21

second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as Peroxin61)/PEX1 is a protein unfoldase; PEX6 and PEX1 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. This subfamily represents the second ATPase domain of PEX6. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410935 [Multi-domain]  Cd Length: 160  Bit Score: 90.26  E-value: 2.41e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   4 FYGETEARLRQIFAEATLRHPSIIFIDELDALCPKR--EGAQSEVEKRVVASLLTLMDGIGSEGSEgrVLVLGATNRPQA 81
Cdd:cd19527    66 YIGESEANVREVFQKARDAKPCVIFFDELDSLAPSRgnSGDSGGVMDRVVSQLLAELDGMSSSGQD--VFVIGATNRPDL 143

                          90
                  ....*....|...
gi 1039764772  82 LDAALRRPGRFDK 94
Cdd:cd19527   144 LDPALLRPGRFDK 156
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 1-97 4.42e-20

second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as Peroxin-1)/PEX6 is a protein unfoldase; PEX1 and PEX6 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. PEX-1 is required for stability of PEX5. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410934 [Multi-domain]  Cd Length: 158  Bit Score: 86.71  E-value: 4.42e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIgsEGSEGrVLVLGATNRPQ 80
Cdd:cd19526    64 LNKYIGASEQNVRDLFSRAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTQLDGV--EGLDG-VYVLAATSRPD 140

                          90
                  ....*....|....*..
gi 1039764772  81 ALDAALRRPGRFDKEIE 97
Cdd:cd19526   141 LIDPALLRPGRLDKLVY 157
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 2-98 1.29e-19

ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; it may be involved in DNA double-strand break repair via homologous recombination. Caenorhabditis elegans FIGL-1 is a nuclear protein and controls the mitotic progression in the germ line and mouse FIGL-1 may be involved in the control of male meiosis. human FIGL-1 has been shown to be a centrosome protein involved in ciliogenesis perhaps as a microtubule-severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410933 [Multi-domain]  Cd Length: 186  Bit Score: 86.20  E-value: 1.29e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   2 TQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIGSeGSEGRVLVLGATNRPQA 81
Cdd:cd19525    93 SKWVGEGEKMVRALFSVARCKQPAVIFIDEIDSLLSQRGEGEHESSRRIKTEFLVQLDGATT-SSEDRILVVGATNRPQE 171

                          90
                  ....*....|....*..
gi 1039764772  82 LDAALRRpgRFDKEIEI 98
Cdd:cd19525   172 IDEAARR--RLVKRLYI 186
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 3-98 5.80e-19

proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily contains ATPase subunits of the eukaryotic 26S proteasome, and of the archaeal proteasome which carry out ATP-dependent degradation of substrates of the ubiquitin-proteasome pathway. The eukaryotic 26S proteasome consists of a proteolytic 20S core particle (CP), and a 19S regulatory particle (RP) which provides the ATP-dependence and the specificity for ubiquitinated proteins. In the archaea the RP is a homohexameric complex of proteasome-activating nucleotidase (PAN). This subfamily also includes various eukaryotic 26S subunits including, proteasome 26S subunit, ATPase 2 (PSMC2, also known as S7 and MSS1) which is a member of the 19S RP and has a chaperone like activity; and proteasome 20S subunit alpha 6 (PSMA6, also known as IOTA, p27K, and PROS27) which is a member of the 20S CP. This RecA-like_PAN subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410910 [Multi-domain]  Cd Length: 171  Bit Score: 83.93  E-value: 5.80e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   3 QFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKRE----GAQSEVEkRVVASLLTLMDGIgseGSEGRVLVLGATNR 78
Cdd:cd19502    76 KYIGEGARLVRELFEMAREKAPSIIFIDEIDAIGAKRFdsgtGGDREVQ-RTMLELLNQLDGF---DPRGNIKVIMATNR 151

                          90       100
                  ....*....|....*....|
gi 1039764772  79 PQALDAALRRPGRFDKEIEI 98
Cdd:cd19502   152 PDILDPALLRPGRFDRKIEF 171
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 2-98 8.44e-19

Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is the catalytic subunit of the Katanin complex which is severs microtubules in an ATP-dependent manner, and is implicated in multiple aspects of microtubule dynamics. In addition to the p60 catalytic ATPase subunit, Katanin contains an accessory subunit (p80 or p80-like). The microtubule-severing activity of the ATPase is essential for female meiotic spindle assembly, and male gamete production; and the katanin complex severing microtubules is under tight regulation during the transition from the meiotic to mitotic stage to allow proper embryogenesis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410930 [Multi-domain]  Cd Length: 170  Bit Score: 83.50  E-value: 8.44e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   2 TQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKR-EGAQSEVEKRVVASLLTLMDGIG----SEGSEGRVLVLGAT 76
Cdd:cd19522    71 SKYRGESEKLVRLLFEMARFYAPTTIFIDEIDSICSRRgTSEEHEASRRVKSELLVQMDGVGgaseNDDPSKMVMVLAAT 150

                          90       100
                  ....*....|....*....|..
gi 1039764772  77 NRPQALDAALRRpgRFDKEIEI 98
Cdd:cd19522   151 NFPWDIDEALRR--RLEKRIYI 170
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 216-371 6.21e-18

Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of mitochondrial respiratory chain complex III and plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex. RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410918 [Multi-domain]  Cd Length: 153  Bit Score: 80.47  E-value: 6.21e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 216 LKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFlaikgpelmnkYVGESERAVREIFRKAR- 294
Cdd:cd19510     1 IIDDLKDFIKNEDWYNDRGIPYRRGYLLYGPPGTGKSSFIAALAGELDYDI-----------CDLNLSEVVLTDDRLNHl 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 295 -AVAP--SIIFFDELDALAVER---GSSSGAGNVADRV-LAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDR 367
Cdd:cd19510    70 lNTAPkqSIILLEDIDAAFESRehnKKNPSAYGGLSRVtFSGLLNALDGVASSEERIVFMTTNHIERLDPALIRPGRVDM 149


                  ....
gi 1039764772 368 IIYV 371
Cdd:cd19510   150 KIYM 153
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 2-88 7.32e-18

ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in microtubule dynamics; it specifically recognizes and cuts microtubules that are polyglutamylated. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410932 [Multi-domain]  Cd Length: 164  Bit Score: 80.66  E-value: 7.32e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   2 TQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIGSEGSEgRVLVLGATNRPQA 81
Cdd:cd19524    71 SKYVGEGEKLVRALFAVARELQPSIIFIDEVDSLLSERSEGEHEASRRLKTEFLIEFDGVQSNGDD-RVLVMGATNRPQE 149


                  ....*...
gi 1039764772  82 LD-AALRR 88
Cdd:cd19524   150 LDdAVLRR 157
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 237-375 9.60e-17

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 77.03  E-value: 9.60e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772  237 PPKGVLLYGPPGCSKTMIAKALANESGLN---FLAIKGPELM--------------NKYVGESERAVREIFRKARAVAPS 299
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPgggVIYIDGEDILeevldqllliivggKKASGSGELRLRLALALARKLKPD 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039764772  300 IIFFDELDALAVERGSssgagnvADRVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMRPgRIDRIIYVPLPD 375
Cdd:smart00382  81 VLILDEITSLLDAEQE-------ALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 1-98 6.86e-16

first of two ATPase domains of NSF and SEC18, and similar ATPase domains; N-ethylmaleimide-sensitive factor (NSF) and Saccharomyces cerevisiae Vesicular-fusion protein Sec18, key factors for eukaryotic trafficking, are ATPases and SNARE disassembly chaperones. NSF/Sec18 activate or prime SNAREs, the terminal catalysts of membrane fusion. Sec18/NSF associates with SNARE complexes through binding Sec17/alpha-SNAP. Sec18 has an N-terminal cap domain and two nucleotide-binding domains (D1 and D2) which form the two rings of the hexameric complex. The hydrolysis of ATP by D1 generates most of the energy necessary to disassemble inactive SNARE bundles, while the D2 ring binds ATP to stabilize the homohexamer. This subfamily includes the first (D1) ATPase domain of NSF/Sec18, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410912 [Multi-domain]  Cd Length: 177  Bit Score: 75.60  E-value: 6.86e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPS--------IIFIDELDALCPKR--EGAQSEVEKRVVASLLTLMDGIGSEGSegrV 70
Cdd:cd19504    73 LNKYVGESEANIRKLFADAEEEQRRlgansglhIIIFDEIDAICKQRgsMAGSTGVHDTVVNQLLSKIDGVEQLNN---I 149

                          90       100
                  ....*....|....*....|....*...
gi 1039764772  71 LVLGATNRPQALDAALRRPGRFDKEIEI 98
Cdd:cd19504   150 LVIGMTNRKDLIDEALLRPGRLEVQMEI 177
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 1-92 7.21e-16

ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase) is an ATPase that plays a critical role in regulating the surface expression of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors, thereby regulating synaptic plasticity, learning and memory. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 75.15  E-value: 7.21e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   1 MTQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLMDGIGSEGSEgRVLVLGATNRPQ 80
Cdd:cd19520    72 TDKWYGESQKLVAAVFSLASKLQPSIIFIDEIDSFLRQRSSTDHEATAMMKAEFMSLWDGLSTDGNC-RVIVMGATNRPQ 150

                          90
                  ....*....|....
gi 1039764772  81 ALDAALRR--PGRF 92
Cdd:cd19520   151 DLDEAILRrmPKRF 164
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 241-371 1.29e-12

ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as Thyroid hormone receptor interactor 13 (TRIP13) and 16E1BP) is a key regulator of specific chromosomal events, like the control of G2/prophase processes such as DNA break formation and recombination, checkpoint signaling, and chromosome synapsis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion


Pssm-ID: 410916 [Multi-domain]  Cd Length: 199  Bit Score: 66.70  E-value: 1.29e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 241 VLLYGPPGCSKTMIAKALANESGLN---------FLAIKGPELMNKYVGESERAVREIFRKARAVA--PSIIFF---DEL 306
Cdd:cd19508    55 VLLHGPPGTGKTSLCKALAQKLSIRlssryrygqLIEINSHSLFSKWFSESGKLVTKMFQKIQELIddKDALVFvliDEV 134

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1039764772 307 DALAVERGSSSGAGNVAD--RVLAQLLTEMDGIEQLKNVTVLAATNRPDRIDKALMrpGRIDRIIYV 371
Cdd:cd19508   135 ESLAAARSASSSGTEPSDaiRVVNAVLTQIDRIKRYHNNVILLTSNLLEKIDVAFV--DRADIKQYI 199
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 2-98 1.57e-12

ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410931 [Multi-domain]  Cd Length: 163  Bit Score: 65.29  E-value: 1.57e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   2 TQFYGETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVeKRVVASLLTLMDGIGSEGSEGrVLVLGATNRPQA 81
Cdd:cd19523    71 AKWAGEGEKILQASFLAARCRQPSVLFISDLDALLSSQDDEASPV-GRLQVELLAQLDGVLGSGEDG-VLVVCTTSKPEE 148

                          90
                  ....*....|....*..
gi 1039764772  82 LDAALRRpgRFDKEIEI 98
Cdd:cd19523   149 IDESLRR--YFSKRLLV 163
RecA-like_ATAD3-like cd19512
ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ...
 239-369 4.01e-10

ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase domains; ATPase AAA-domain protein 3 (ATAD3) is a ubiquitously expressed mitochondrial protein involved in mitochondrial dynamics, DNA-nucleoid structural organization, cholesterol transport and steroidogenesis. The ATAD3 gene family in human comprises three paralog genes: ATAD3A, ATAD3B and ATAD3C. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410920 [Multi-domain]  Cd Length: 150  Bit Score: 58.31  E-value: 4.01e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 239 KGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPEL--MNKyvgESERAVREIFRKARAVAPSIIFF-DELDALAVERgS 315
Cdd:cd19512    23 RNILFYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVapMGR---EGVTAIHKVFDWANTSRRGLLLFvDEADAFLRKR-S 98

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1039764772 316 SSGAGNVADRVLAQLLTEMDgiEQLKNVTVLAATNRPDRIDKALMrpGRIDRII 369
Cdd:cd19512    99 TEKISEDLRAALNAFLYRTG--EQSNKFMLVLASNQPEQFDWAIN--DRIDEMV 148
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 6-93 2.10e-09

ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of photosynthesis in cyanobacteria, especially in CO2 uptake and utilization. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410915 [Multi-domain]  Cd Length: 161  Bit Score: 56.22  E-value: 2.10e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   6 GETEARLRQIFAEATLRHPSIIFIDELD-ALCPKREGAQSEVEKRVVASLLTLMdgigSEGSEgRVLVLGATNRPQALDA 84
Cdd:cd19507    73 GESESRLRQMIQTAEAIAPCVLWIDEIEkGFSNADSKGDSGTSSRVLGTFLTWL----QEKKK-PVFVVATANNVQSLPP 147


                  ....*....
gi 1039764772  85 ALRRPGRFD 93
Cdd:cd19507   148 ELLRKGRFD 156
RecA-like_Ycf2 cd19505
ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; ...
 232-371 4.81e-09

ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; however, its function remains unclear. The gene encoding YCF2 is the largest known plastid gene in angiosperms and has been used to predict phylogenetic relationships. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410913 [Multi-domain]  Cd Length: 161  Bit Score: 55.07  E-value: 4.81e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 232 RMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAI--------------KGPELMNKYVGESERAVREIFRKARAVA 297
Cdd:cd19505     6 RLGLSPSKGILLIGSIETGRSYLIKSLAANSYVPLIRIslnkllynkpdfgnDDWIDGMLILKESLHRLNLQFELAKAMS 85

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1039764772 298 PSIIFFDELDALAVERGSSSGAGNvADRVLAQLLTEM-DGIEQ--LKNVTVLAATNRPDRIDKALMRPGRIDRIIYV 371
Cdd:cd19505    86 PCIIWIPNIHELNVNRSTQNLEED-PKLLLGLLLNYLsRDFEKssTRNILVIASTHIPQKVDPALIAPNRLDTCINI 161
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 395-433 5.61e-09

AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.


Pssm-ID: 465537 [Multi-domain]  Cd Length: 45  Bit Score: 51.77  E-value: 5.61e-09
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1039764772 395 EVDLDELVLQTDTYSGAEIIAVCKEAALLALEENIKADC 433
Cdd:pfam17862   1 DVDLEELAERTEGFSGADLEALCREAALAALRRGLEAVT 39
ycf46 CHL00195
Ycf46; Provisional
 6-152 1.02e-08

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 57.34  E-value: 1.02e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772   6 GETEARLRQI--FAEATlrHPSIIFIDELD-ALCPKREGAQSEVEKRVVASLLTLMdgigsegSEGR--VLVLGATNRPQ 80
Cdd:CHL00195  301 GESESRMRQMirIAEAL--SPCILWIDEIDkAFSNSESKGDSGTTNRVLATFITWL-------SEKKspVFVVATANNID 371

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1039764772  81 ALDAALRRPGRFDKEIEIGIPNAQDRLDILQKLLRRV-PHLLTKAELLRLANNAHGYVGADLKALCNEAGLHA 152
Cdd:CHL00195  372 LLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFrPKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIA 444
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 125-159 1.78e-08

AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.


Pssm-ID: 465537 [Multi-domain]  Cd Length: 45  Bit Score: 50.23  E-value: 1.78e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1039764772 125 ELLRLANNAHGYVGADLKALCNEAGLHALRRVLRK 159
Cdd:pfam17862   3 DLEELAERTEGFSGADLEALCREAALAALRRGLEA 37
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 12-99 8.17e-07

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 48.68  E-value: 8.17e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772  12 LRQIFAEATLRHPSIIFIDELDALcpkREGAQSEVekrvvasLLTLMDGIGSEGSEGRVLVLGATNRPQALDAALRRPGR 91
Cdd:cd00009    73 VRLLFELAEKAKPGVLFIDEIDSL---SRGAQNAL-------LRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDR 142


                  ....*...
gi 1039764772  92 FDKEIEIG 99
Cdd:cd00009   143 LDIRIVIP 150
PRK04195 PRK04195
replication factor C large subunit; Provisional
 236-309 2.21e-06

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 49.92  E-value: 2.21e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 236 QPPKGVLLYGPPGCSKTMIAKALANESGLNFLaikgpEL----------MNKYVGESERaVREIFRKARavapSIIFFDE 305
Cdd:PRK04195   37 KPKKALLLYGPPGVGKTSLAHALANDYGWEVI-----ELnasdqrtadvIERVAGEAAT-SGSLFGARR----KLILLDE 106


                  ....
gi 1039764772 306 LDAL 309
Cdd:PRK04195  107 VDGI 110
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 241-314 3.28e-06

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 49.31  E-value: 3.28e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 241 VLLYGPPGCSKTMIAKALANESGLNFLAIKGpelmnkyVGESERAVREIFRKARAVAPS----IIFFDEL--------DA 308
Cdd:PRK13342   39 MILWGPPGTGKTTLARIIAGATDAPFEALSA-------VTSGVKDLREVIEEARQRRSAgrrtILFIDEIhrfnkaqqDA 111


                  ....*...
gi 1039764772 309 L--AVERG 314
Cdd:PRK13342  112 LlpHVEDG 119
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 241-314 3.69e-06

Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, recombination and repair];


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 49.28  E-value: 3.69e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 241 VLLYGPPGCSKTMIAKALANESGLNFLAIKGpelmnkyVGESERAVREIFRKARAVA----PSIIFFDEL--------DA 308
Cdd:COG2256    52 MILWGPPGTGKTTLARLIANATDAEFVALSA-------VTSGVKDIREVIEEARERRaygrRTILFVDEIhrfnkaqqDA 124


                  ....*...
gi 1039764772 309 L--AVERG 314
Cdd:COG2256   125 LlpHVEDG 132
RecA-like_HslU cd19498
ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease ...
 238-318 1.38e-05

ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease HslVU. In HslVU, HslU ATPase serves to unfold and translocate protein substrate, and the HslV protease degrades the unfolded proteins. This RecA-like_HslU subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410906 [Multi-domain]  Cd Length: 183  Bit Score: 45.45  E-value: 1.38e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 238 PKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMN-KYVGeseRAVREIFRKaraVAPSIIFFDELDALAVERGSS 316
Cdd:cd19498    46 PKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTEvGYVG---RDVESIIRD---LVEGIVFIDEIDKIAKRGGSS 119


                  ..
gi 1039764772 317 SG 318
Cdd:cd19498   120 GP 121
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 6-102 2.03e-05

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 44.67  E-value: 2.03e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772    6 GETEARLRQIFAEATLRHPSIIFIDELDALCPKREGAQSEVEKRVVASLLTLmdgigsegSEGRVLVLGATNRPQALDAA 85
Cdd:smart00382  61 GSGELRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLK--------SEKNLTVILTTNDEKDLGPA 132

                           90
                   ....*....|....*..
gi 1039764772   86 LRRPgRFDKEIEIGIPN 102
Cdd:smart00382 133 LLRR-RFDRRIVLLLIL 148
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 240-361 8.49e-05

AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400191 [Multi-domain]  Cd Length: 135  Bit Score: 42.28  E-value: 8.49e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 240 GVLLYGPPGCSKTMIAKALANE-SGLNFLAIKGPELMNK---------YVGESERAVREIFRKARavAPSIIFFDEldal 309
Cdd:pfam07728   1 GVLLVGPPGTGKTELAERLAAAlSNRPVFYVQLTRDTTEedlfgrrniDPGGASWVDGPLVRAAR--EGEIAVLDE---- 74

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1039764772 310 aVERGSSSgagnVADRVLAQL----LTEMDGIEQLK----NVTVLAATNRPDR----IDKALMR 361
Cdd:pfam07728  75 -INRANPD----VLNSLLSLLderrLLLPDGGELVKaapdGFRLIATMNPLDRglneLSPALRS 133
MoxR COG0714
MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway ...
 241-401 9.20e-05

MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway/BioSystem: Cobalamine/B12 biosynthesis


Pssm-ID: 440478 [Multi-domain]  Cd Length: 292  Bit Score: 44.39  E-value: 9.20e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 241 VLLYGPPGCSKTMIAKALANESGLNFLAIKG-PELM-NKYVGES---ERAVREIFRKaRAVAPSIIFFDELDalaveRGS 315
Cdd:COG0714    34 LLLEGVPGVGKTTLAKALARALGLPFIRIQFtPDLLpSDILGTYiydQQTGEFEFRP-GPLFANVLLADEIN-----RAP 107

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 316 ssgagnvaDRVLAQLLTEMDgiEqlKNVT-------------VLAATNRPDRI----------DKALMRpgridriIYVP 372
Cdd:COG0714   108 --------PKTQSALLEAME--E--RQVTipggtyklpepflVIATQNPIEQEgtyplpeaqlDRFLLK-------LYIG 168

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1039764772 373 LPDAATRREILNLQ--FHSMPISNEVDLDEL 401
Cdd:COG0714   169 YPDAEEEREILRRHtgRHLAEVEPVLSPEEL 199
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
 241-274 2.62e-04

Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the RuvABC revolvasome which catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalyzed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein.


Pssm-ID: 398900 [Multi-domain]  Cd Length: 159  Bit Score: 41.33  E-value: 2.62e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1039764772 241 VLLYGPPGCSKTMIAKALANESGLNFLAIKGPEL 274
Cdd:pfam05496  36 VLLYGPPGLGKTTLANIIANEMGVNIRITSGPAI 69
RecA-like_IQCA1 cd19506
ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein ...
 239-305 2.63e-04

ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein regulatory complex subunit 11, DRC11 and IQCA) is an ATPase subunit of the nexin-dynein regulatory complex (N-DRC). The 9 + 2 axoneme of most motile cilia and flagella consists of nine outer doublet microtubules arranged in a ring surrounding a central pair of two singlet microtubules. The N-DRC complex maintains alignment between outer doublet microtubules and limits microtubule sliding in motile axonemes. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410914 [Multi-domain]  Cd Length: 160  Bit Score: 41.36  E-value: 2.63e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1039764772 239 KGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPELMNKYVGES--ERAVREIFRKARAVAPSIIFFDE 305
Cdd:cd19506    27 KSLLLAGPSGVGKKMLVHAICTETGANLFNLSPSNIAGKYPGKNglQMMLHLVLKVARQLQPSVIWIGD 95
RecA-like_ClpB_Hsp104-like cd19499
Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and ...
 232-370 3.80e-04

Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and eukaryotic Heat shock protein 104 (Hsp104) are ATP-dependent molecular chaperones and essential proteins of the heat-shock response. ClpB/Hsp104 ATPases, in concert with the DnaK/Hsp70 chaperone system, disaggregate and reactivate aggregated proteins. This RecA-like_ClpB_Hsp104_like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410907 [Multi-domain]  Cd Length: 178  Bit Score: 41.39  E-value: 3.80e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 232 RMGIQPPK---GVLLY-GPPGCSKTMIAKALA---NESGLNFLAIKGPELMNK------------YVGESERAVreIFRK 292
Cdd:cd19499    31 RAGLSDPNrpiGSFLFlGPTGVGKTELAKALAellFGDEDNLIRIDMSEYMEKhsvsrligappgYVGYTEGGQ--LTEA 108

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 293 ARAVAPSIIFFDEldalaVERGSSsgagNVADRVLAQL----LTEMDGIE-QLKNVTVLAATN--RPDRIdkalmrpGRI 365
Cdd:cd19499   109 VRRKPYSVVLLDE-----IEKAHP----DVQNLLLQVLddgrLTDSHGRTvDFKNTIIIMTSNhfRPEFL-------NRI 172


                  ....*
gi 1039764772 366 DRIIY 370
Cdd:cd19499   173 DEIVV 177
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
239-293 9.39e-04

DNA helicase TIP49, TBP-interacting protein [Transcription];


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 41.49  E-value: 9.39e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1039764772 239 KGVLLYGPPGCSKTMIAKALANESGLN--FLAIKGPELMNKYVGESErAVREIFRKA 293
Cdd:COG1224    65 KGILIVGPPGTGKTALAVAIARELGEDtpFVAISGSEIYSAELKKTE-FLMQALRKA 120
AAA_2 pfam07724
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ...
 238-307 1.58e-03

AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400187 [Multi-domain]  Cd Length: 168  Bit Score: 39.10  E-value: 1.58e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039764772 238 PKGV-LLYGPPGCSKTMIAKALANESGL---NFLAIKGPELMNK------------YVGESERAVreIFRKARAVAPSII 301
Cdd:pfam07724   2 PIGSfLFLGPTGVGKTELAKALAELLFGderALIRIDMSEYMEEhsvsrligappgYVGYEEGGQ--LTEAVRRKPYSIV 79


                  ....*.
gi 1039764772 302 FFDELD 307
Cdd:pfam07724  80 LIDEIE 85
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
241-274 1.96e-03

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 40.11  E-value: 1.96e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1039764772 241 VLLYGPPGCSKTMIAKALANESGLNFLAIKGPEL 274
Cdd:PRK00080   54 VLLYGPPGLGKTTLANIIANEMGVNIRITSGPAL 87
RuvB COG2255
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ...
 241-272 8.85e-03

Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, recombination and repair];


Pssm-ID: 441856 [Multi-domain]  Cd Length: 337  Bit Score: 38.14  E-value: 8.85e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1039764772 241 VLLYGPPGCSKTMIAKALANESGLNFLAIKGP 272
Cdd:COG2255    57 VLLYGPPGLGKTTLAHIIANEMGVNIRITSGP 88
Mg_chelatase pfam01078
Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that ...
 241-258 9.47e-03

Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that catalyzes the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. Due to this, it is thought that Mg-chelatase has an important role in channelling inter- mediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weight between 38-42 kDa.


Pssm-ID: 426032 [Multi-domain]  Cd Length: 207  Bit Score: 37.51  E-value: 9.47e-03
                          10
                  ....*....|....*...
gi 1039764772 241 VLLYGPPGCSKTMIAKAL 258
Cdd:pfam01078  25 LLMIGPPGSGKTMLAKRL 42
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
235-261 9.51e-03

DNA replication protein DnaC [Replication, recombination and repair];


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 37.84  E-value: 9.51e-03
                          10        20
                  ....*....|....*....|....*..
gi 1039764772 235 IQPPKGVLLYGPPGCSKTMIAKALANE 261
Cdd:COG1484    96 IERGENLILLGPPGTGKTHLAIALGHE 122
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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