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Conserved domains on  [gi|2462562010|ref|XP_054175353|]
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vacuolar protein sorting-associated protein 4B isoform X1 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 10-180 7.57e-128

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: 362.26  E-value: 7.57e-128
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  10 RPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSK 89
Cdd:cd19521     1 KPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFTGNRKPWSGILLYGPPGTGKSYLAKAVATEAN-STFFSVSSSDLVSK 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  90 WLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSA 169
Cdd:cd19521    80 WMGESEKLVKQLFAMARENKPSIIFIDEVDSLCGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSA 159

                         170
                  ....*....|.
gi 2462562010 170 IRRRFEKRIYI 180
Cdd:cd19521   160 IRRRFEKRIYI 170
Vps4_C pfam09336
Vps4 C terminal oligomerization domain; This domain is found at the C terminal of ATPase ...
 263-323 3.13e-37

Vps4 C terminal oligomerization domain; This domain is found at the C terminal of ATPase proteins involved in vacuolar sorting. It forms an alpha helix structure and is required for oligomerization.


:

Pssm-ID: 462762 [Multi-domain]  Cd Length: 61  Bit Score: 127.23  E-value: 3.13e-37
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2462562010 263 LTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMSDMLRSLSNTKPTVNEHDLLKLKKFTEDFG 323
Cdd:pfam09336   1 LTPCSPGDPGAIEMTWMDIPSDKLLEPPVTMKDFLKALKSSRPTVSKEDLEKYEEFTKEFG 61
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 207-248 3.52e-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: 49.07  E-value: 3.52e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2462562010 207 DFRELGRKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVR 248
Cdd:pfam17862   3 DLEELAERTEGFSGADLEALCREAALAALRRGLEAVTQEDLE 44
 
Name Accession Description Interval E-value
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 10-180 7.57e-128

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: 362.26  E-value: 7.57e-128
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  10 RPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSK 89
Cdd:cd19521     1 KPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFTGNRKPWSGILLYGPPGTGKSYLAKAVATEAN-STFFSVSSSDLVSK 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  90 WLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSA 169
Cdd:cd19521    80 WMGESEKLVKQLFAMARENKPSIIFIDEVDSLCGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSA 159

                         170
                  ....*....|.
gi 2462562010 170 IRRRFEKRIYI 180
Cdd:cd19521   160 IRRRFEKRIYI 170
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 2-237 6.92e-89

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 269.18  E-value: 6.92e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010   2 RRGAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFT--GKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFF 79
Cdd:COG1222    64 RGTAVPAESPDVTFDDIGGLDEQIEEIREAVELPLKNPELFRkyGIEPP-KGVLLYGPPGTGKTLLAKAVAGELG-APFI 141

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  80 SISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSEN-ESEAARRIKTEFLVQMQGVGvDNDGILVLG 158
Cdd:COG1222   142 RVRGSELVSKYIGEGARNVREVFELAREKAPSIIFIDEIDAIAARRTDDgTSGEVQRTVNQLLAELDGFE-SRGDVLIIA 220

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 159 ATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLgTTQNSLTEADFRELGRKTDGYSGADISIIVRDALMQPVR 236
Cdd:COG1222   221 ATNRPDLLDPALLRpgRFDRVIEVPLPDEEAREEILKIHL-RDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGMFAIR 299


                  .
gi 2462562010 237 K 237
Cdd:COG1222   300 E 300
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 6-324 1.88e-69

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: 229.79  E-value: 1.88e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010   6 IVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFT--GKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFFSISS 83
Cdd:TIGR01243 443 VLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEkmGIRPP-KGVLLFGPPGTGKTLLAKAVATESG-ANFIAVRG 520

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  84 SDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAAR-RIKTEFLVQMQGVgVDNDGILVLGATNI 162
Cdd:TIGR01243 521 PEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTdRIVNQLLTEMDGI-QELSNVVVIAATNR 599

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 163 PWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHlgTTQNSLTE-ADFRELGRKTDGYSGADISIIVRDALMQPVRKVQ 239
Cdd:TIGR01243 600 PDILDPALLRpgRFDRLILVPPPDEEARKEIFKIH--TRSMPLAEdVDLEELAEMTEGYTGADIEAVCREAAMAALRESI 677

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 240 SATHFKKVRGPSRADPNHLvddlltpcspgdpgaiemtwmdvpgdkllepVVSMSDMLRSLSNTKPTVNEHDLLKLKKFT 319
Cdd:TIGR01243 678 GSPAKEKLEVGEEEFLKDL-------------------------------KVEMRHFLEALKKVKPSVSKEDMLRYERLA 726


                  ....*
gi 2462562010 320 EDFGQ 324
Cdd:TIGR01243 727 KELKR 731
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 7-237 2.36e-65

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 210.84  E-value: 2.36e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010   7 VIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFtgKR---TPWRGILLFGPPGTGKSYLAKAVATEANnSTFFSISS 83
Cdd:PRK03992  122 VIESPNVTYEDIGGLEEQIREVREAVELPLKKPELF--EEvgiEPPKGVLLYGPPGTGKTLLAKAVAHETN-ATFIRVVG 198

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  84 SDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAAR---RIKTEFLVQMQgvGVDNDG-ILVLGA 159
Cdd:PRK03992  199 SELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDRevqRTLMQLLAEMD--GFDPRGnVKIIAA 276

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 160 TNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHlgtTQN-SLTEA-DFRELGRKTDGYSGADISIIVRDALMQPV 235
Cdd:PRK03992  277 TNRIDILDPAILRpgRFDRIIEVPLPDEEGRLEILKIH---TRKmNLADDvDLEELAELTEGASGADLKAICTEAGMFAI 353


                  ..
gi 2462562010 236 RK 237
Cdd:PRK03992  354 RD 355
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 52-182 1.16e-56

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: 179.71  E-value: 1.16e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  52 ILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESE 131
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELG-APFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGGDS 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2462562010 132 AARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPL 182
Cdd:pfam00004  80 ESRRVVNQLLTELDGFTSSNSKVIVIAATNRPDKLDPALLGRFDRIIEFPL 130
Vps4_C pfam09336
Vps4 C terminal oligomerization domain; This domain is found at the C terminal of ATPase ...
 263-323 3.13e-37

Vps4 C terminal oligomerization domain; This domain is found at the C terminal of ATPase proteins involved in vacuolar sorting. It forms an alpha helix structure and is required for oligomerization.


Pssm-ID: 462762 [Multi-domain]  Cd Length: 61  Bit Score: 127.23  E-value: 3.13e-37
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2462562010 263 LTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMSDMLRSLSNTKPTVNEHDLLKLKKFTEDFG 323
Cdd:pfam09336   1 LTPCSPGDPGAIEMTWMDIPSDKLLEPPVTMKDFLKALKSSRPTVSKEDLEKYEEFTKEFG 61
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 48-184 2.09e-20

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: 85.89  E-value: 2.09e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010   48 PWRGILLFGPPGTGKSYLAKAVATEAN--NSTFFSISSSDL--------------VSKWLGESEKLVKNLFQLARENKPS 111
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGppGGGVIYIDGEDIleevldqllliivgGKKASGSGELRLRLALALARKLKPD 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2462562010  112 IIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGvgvdndGILVLGATNIPWVLDSA-IRRRFEKRIYIPLPE 184
Cdd:smart00382  81 VLILDEITSLLDAEQEALLLLLEELRLLLLLKSEK------NLTVILTTNDEKDLGPAlLRRRFDRRIVLLLIL 148
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 207-248 3.52e-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: 49.07  E-value: 3.52e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2462562010 207 DFRELGRKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVR 248
Cdd:pfam17862   3 DLEELAERTEGFSGADLEALCREAALAALRRGLEAVTQEDLE 44
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 52-118 1.04e-06

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.


Pssm-ID: 439516  Cd Length: 232  Bit Score: 49.01  E-value: 1.04e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2462562010  52 ILLFGPPGTGKSYLAKAV---ATEANNSTFFsISSSDLVSKW-LGESE-KLVKNLFQLARenkPSIIFIDEI 118
Cdd:NF038214   93 VLLLGPPGTGKTHLAIALgyaACRQGYRVRF-TTAADLVEQLaQARADgRLGRLLRRLAR---YDLLIIDEL 160
 
Name Accession Description Interval E-value
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 10-180 7.57e-128

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: 362.26  E-value: 7.57e-128
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  10 RPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSK 89
Cdd:cd19521     1 KPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFTGNRKPWSGILLYGPPGTGKSYLAKAVATEAN-STFFSVSSSDLVSK 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  90 WLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSA 169
Cdd:cd19521    80 WMGESEKLVKQLFAMARENKPSIIFIDEVDSLCGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSA 159

                         170
                  ....*....|.
gi 2462562010 170 IRRRFEKRIYI 180
Cdd:cd19521   160 IRRRFEKRIYI 170
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 18-180 9.48e-95

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: 278.08  E-value: 9.48e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  18 VAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWLGESEKL 97
Cdd:cd19509     1 IAGLDDAKEALKEAVILPSLRPDLFPGLRGPPRGILLYGPPGTGKTLLARAVASESG-STFFSISASSLVSKWVGESEKI 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  98 VKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGV-GVDNDGILVLGATNIPWVLDSAIRRRFEK 176
Cdd:cd19509    80 VRALFALARELQPSIIFIDEIDSLLSERGSGEHEASRRVKTEFLVQMDGVlNKPEDRVLVLGATNRPWELDEAFLRRFEK 159


                  ....
gi 2462562010 177 RIYI 180
Cdd:cd19509   160 RIYI 163
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 2-237 6.92e-89

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 269.18  E-value: 6.92e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010   2 RRGAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFT--GKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFF 79
Cdd:COG1222    64 RGTAVPAESPDVTFDDIGGLDEQIEEIREAVELPLKNPELFRkyGIEPP-KGVLLYGPPGTGKTLLAKAVAGELG-APFI 141

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  80 SISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSEN-ESEAARRIKTEFLVQMQGVGvDNDGILVLG 158
Cdd:COG1222   142 RVRGSELVSKYIGEGARNVREVFELAREKAPSIIFIDEIDAIAARRTDDgTSGEVQRTVNQLLAELDGFE-SRGDVLIIA 220

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 159 ATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLgTTQNSLTEADFRELGRKTDGYSGADISIIVRDALMQPVR 236
Cdd:COG1222   221 ATNRPDLLDPALLRpgRFDRVIEVPLPDEEAREEILKIHL-RDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGMFAIR 299


                  .
gi 2462562010 237 K 237
Cdd:COG1222   300 E 300
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 17-180 1.98e-75

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: 229.10  E-value: 1.98e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  17 DVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAnNSTFFSISSSDLVSKWLGESEK 96
Cdd:cd19522     1 DIADLEEAKKLLEEAVVLPMWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATEC-GTTFFNVSSSTLTSKYRGESEK 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  97 LVKNLFQLARENKPSIIFIDEIDSLCGSR-SENESEAARRIKTEFLVQMQGVG--VDNDG----ILVLGATNIPWVLDSA 169
Cdd:cd19522    80 LVRLLFEMARFYAPTTIFIDEIDSICSRRgTSEEHEASRRVKSELLVQMDGVGgaSENDDpskmVMVLAATNFPWDIDEA 159

                         170
                  ....*....|.
gi 2462562010 170 IRRRFEKRIYI 180
Cdd:cd19522   160 LRRRLEKRIYI 170
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 15-236 7.35e-75

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: 235.58  E-value: 7.35e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  15 WSDVAGLEGAKEALKEAVILPIKFPHLFT--GKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWLG 92
Cdd:COG0464   156 LDDLGGLEEVKEELRELVALPLKRPELREeyGLPPP-RGLLLYGPPGTGKTLLARALAGELG-LPLIEVDLSDLVSKYVG 233

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  93 ESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVgvdNDGILVLGATNIPWVLDSAIRR 172
Cdd:COG0464   234 ETEKNLREVFDKARGLAPCVLFIDEADALAGKRGEVGDGVGRRVVNTLLTEMEEL---RSDVVVIAATNRPDLLDPALLR 310

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2462562010 173 RFEKRIYIPLPEPHARAAMFKLHLGTTQNSlTEADFRELGRKTDGYSGADISIIVRDALMQPVR 236
Cdd:COG0464   311 RFDEIIFFPLPDAEERLEIFRIHLRKRPLD-EDVDLEELAEATEGLSGADIRNVVRRAALQALR 373
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 11-180 4.24e-74

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: 226.41  E-value: 4.24e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  11 PNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKW 90
Cdd:cd19525    17 PPINWADIAGLEFAKKTIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSG-ATFFSISASSLTSKW 95

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  91 LGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGV-DNDGILVLGATNIPWVLDSA 169
Cdd:cd19525    96 VGEGEKMVRALFSVARCKQPAVIFIDEIDSLLSQRGEGEHESSRRIKTEFLVQLDGATTsSEDRILVVGATNRPQEIDEA 175

                         170
                  ....*....|.
gi 2462562010 170 IRRRFEKRIYI 180
Cdd:cd19525   176 ARRRLVKRLYI 186
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 17-180 1.58e-71

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: 218.95  E-value: 1.58e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  17 DVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWLGESEK 96
Cdd:cd19524     1 DIAGQDLAKQALQEMVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESN-ATFFNISAASLTSKYVGEGEK 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  97 LVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGV-GVDNDGILVLGATNIPWVLDSAIRRRFE 175
Cdd:cd19524    80 LVRALFAVARELQPSIIFIDEVDSLLSERSEGEHEASRRLKTEFLIEFDGVqSNGDDRVLVMGATNRPQELDDAVLRRFT 159


                  ....*
gi 2462562010 176 KRIYI 180
Cdd:cd19524   160 KRVYV 164
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 6-324 1.88e-69

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: 229.79  E-value: 1.88e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010   6 IVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFT--GKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFFSISS 83
Cdd:TIGR01243 443 VLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEkmGIRPP-KGVLLFGPPGTGKTLLAKAVATESG-ANFIAVRG 520

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  84 SDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAAR-RIKTEFLVQMQGVgVDNDGILVLGATNI 162
Cdd:TIGR01243 521 PEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTdRIVNQLLTEMDGI-QELSNVVVIAATNR 599

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 163 PWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHlgTTQNSLTE-ADFRELGRKTDGYSGADISIIVRDALMQPVRKVQ 239
Cdd:TIGR01243 600 PDILDPALLRpgRFDRLILVPPPDEEARKEIFKIH--TRSMPLAEdVDLEELAEMTEGYTGADIEAVCREAAMAALRESI 677

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 240 SATHFKKVRGPSRADPNHLvddlltpcspgdpgaiemtwmdvpgdkllepVVSMSDMLRSLSNTKPTVNEHDLLKLKKFT 319
Cdd:TIGR01243 678 GSPAKEKLEVGEEEFLKDL-------------------------------KVEMRHFLEALKKVKPSVSKEDMLRYERLA 726


                  ....*
gi 2462562010 320 EDFGQ 324
Cdd:TIGR01243 727 KELKR 731
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 7-237 2.36e-65

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 210.84  E-value: 2.36e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010   7 VIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFtgKR---TPWRGILLFGPPGTGKSYLAKAVATEANnSTFFSISS 83
Cdd:PRK03992  122 VIESPNVTYEDIGGLEEQIREVREAVELPLKKPELF--EEvgiEPPKGVLLYGPPGTGKTLLAKAVAHETN-ATFIRVVG 198

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  84 SDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAAR---RIKTEFLVQMQgvGVDNDG-ILVLGA 159
Cdd:PRK03992  199 SELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDRevqRTLMQLLAEMD--GFDPRGnVKIIAA 276

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 160 TNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHlgtTQN-SLTEA-DFRELGRKTDGYSGADISIIVRDALMQPV 235
Cdd:PRK03992  277 TNRIDILDPAILRpgRFDRIIEVPLPDEEGRLEILKIH---TRKmNLADDvDLEELAELTEGASGADLKAICTEAGMFAI 353


                  ..
gi 2462562010 236 RK 237
Cdd:PRK03992  354 RD 355
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 17-180 2.27e-58

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: 185.32  E-value: 2.27e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  17 DVAGLEGAKEALKEAVILPIKFPHLFTGKR--TPWRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWLGES 94
Cdd:cd19520     1 DIGGLDEVITELKELVILPLQRPELFDNSRllQPPKGVLLYGPPGCGKTMLAKATAKEAG-ARFINLQVSSLTDKWYGES 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  95 EKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVD-NDGILVLGATNIPWVLDSAIRRR 173
Cdd:cd19520    80 QKLVAAVFSLASKLQPSIIFIDEIDSFLRQRSSTDHEATAMMKAEFMSLWDGLSTDgNCRVIVMGATNRPQDLDEAILRR 159


                  ....*..
gi 2462562010 174 FEKRIYI 180
Cdd:cd19520   160 MPKRFHI 166
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 52-182 1.16e-56

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: 179.71  E-value: 1.16e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  52 ILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESE 131
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELG-APFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGGDS 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2462562010 132 AARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPL 182
Cdd:pfam00004  80 ESRRVVNQLLTELDGFTSSNSKVIVIAATNRPDKLDPALLGRFDRIIEFPL 130
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 24-180 5.99e-56

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: 179.02  E-value: 5.99e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  24 AKEALKEAVILPIKFPHLFT--GKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWLGESEKLVKNL 101
Cdd:cd19511     1 VKRELKEAVEWPLKHPDAFKrlGIRPP-KGVLLYGPPGCGKTLLAKALASEAG-LNFISVKGPELFSKYVGESERAVREI 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 102 FQLARENKPSIIFIDEIDSLCGSRS-ENESEAARRIKTEFLVQMQGVGVdNDGILVLGATNIPWVLDSAIRR--RFEKRI 178
Cdd:cd19511    79 FQKARQAAPCIIFFDEIDSLAPRRGqSDSSGVTDRVVSQLLTELDGIES-LKGVVVIAATNRPDMIDPALLRpgRLDKLI 157


                  ..
gi 2462562010 179 YI 180
Cdd:cd19511   158 YV 159
FtsH_fam TIGR01241
ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct ...
 9-241 6.32e-54

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: 183.64  E-value: 6.32e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010   9 ERPNVKWSDVAGLEGAKEALKEAVILpIKFPHLFT--GKRTPwRGILLFGPPGTGKSYLAKAVATEANNStFFSISSSDL 86
Cdd:TIGR01241  48 EKPKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFTklGAKIP-KGVLLVGPPGTGKTLLAKAVAGEAGVP-FFSISGSDF 124

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  87 VSKWLGESEKLVKNLFQLARENKPSIIFIDEIDS--------LCGSRSENEseaarRIKTEFLVQMQGVGvDNDGILVLG 158
Cdd:TIGR01241 125 VEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAvgrqrgagLGGGNDERE-----QTLNQLLVEMDGFG-TNTGVIVIA 198

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 159 ATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGTTQNSlTEADFRELGRKTDGYSGADISIIVRDALMQPVR 236
Cdd:TIGR01241 199 ATNRPDVLDPALLRpgRFDRQVVVDLPDIKGREEILKVHAKNKKLA-PDVDLKAVARRTPGFSGADLANLLNEAALLAAR 277


                  ....*
gi 2462562010 237 KVQSA 241
Cdd:TIGR01241 278 KNKTE 282
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 11-238 3.67e-53

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: 185.88  E-value: 3.67e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  11 PNVKWSDVAGLEGAKEALKEAVILPIKFPHLFT--GKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVS 88
Cdd:TIGR01243 173 PKVTYEDIGGLKEAKEKIREMVELPMKHPELFEhlGIEPP-KGVLLYGPPGTGKTLLAKAVANEAG-AYFISINGPEIMS 250

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  89 KWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGvDNDGILVLGATNIPWVLDS 168
Cdd:TIGR01243 251 KYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLK-GRGRVIVIGATNRPDALDP 329

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2462562010 169 AIRR--RFEKRIYIPLPEPHARAAMFKLHlgtTQNSL--TEADFRELGRKTDGYSGADISIIVRDALMQPVRKV 238
Cdd:TIGR01243 330 ALRRpgRFDREIVIRVPDKRARKEILKVH---TRNMPlaEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRF 400
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 17-180 5.97e-53

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: 171.32  E-value: 5.97e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  17 DVAGLEGAKEALKEAVILPIKFPHLFT--GKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWLGES 94
Cdd:cd19503     1 DIGGLDEQIASLKELIELPLKYPELFRalGLKPP-RGVLLHGPPGTGKTLLARAVANEAG-ANFLSISGPSIVSKYLGES 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  95 EKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNdGILVLGATNIPWVLDSAIRR-- 172
Cdd:cd19503    79 EKNLREIFEEARSHAPSIIFIDEIDALAPKREEDQREVERRVVAQLLTLMDGMSSRG-KVVVIAATNRPDAIDPALRRpg 157


                  ....*...
gi 2462562010 173 RFEKRIYI 180
Cdd:cd19503   158 RFDREVEI 165
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 9-237 1.77e-51

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


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 174.95  E-value: 1.77e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010   9 ERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLF--TGKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDL 86
Cdd:PTZ00454  138 EKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYeqIGIDPP-RGVLLYGPPGTGKTMLAKAVAHHTT-ATFIRVVGSEF 215

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  87 VSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAAR---RIKTEFLVQMQGVGVDNDgILVLGATNIP 163
Cdd:PTZ00454  216 VQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADRevqRILLELLNQMDGFDQTTN-VKVIMATNRA 294

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2462562010 164 WVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLhLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDALMQPVRK 237
Cdd:PTZ00454  295 DTLDPALLRpgRLDRKIEFPLPDRRQKRLIFQT-ITSKMNLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVRK 369
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 24-180 1.36e-49

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: 162.45  E-value: 1.36e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  24 AKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNStFFSISSSDLVSKWLGESEKLVKNLFQ 103
Cdd:cd19481     1 LKASLREAVEAPRRGSRLRRYGLGLPKGILLYGPPGTGKTLLAKALAGELGLP-LIVVKLSSLLSKYVGESEKNLRKIFE 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 104 LARENKPSIIFIDEIDSLCGSRSEN-ESEAARRIKTEFLVQMQGVGVDNdGILVLGATNIPWVLDSAIRR--RFEKRIYI 180
Cdd:cd19481    80 RARRLAPCILFIDEIDAIGRKRDSSgESGELRRVLNQLLTELDGVNSRS-KVLVIAATNRPDLLDPALLRpgRFDEVIEF 158
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
15-247 3.48e-48

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


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 161.98  E-value: 3.48e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  15 WSDVAGLEGAKEALKEAVI------LPIKFphlftGKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVS 88
Cdd:COG1223     1 LDDVVGQEEAKKKLKLIIKelrrreNLRKF-----GLWPP-RKILFYGPPGTGKTMLAEALAGELK-LPLLTVRLDSLIG 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  89 KWLGESEKLVKNLFQLARENkPSIIFIDEIDSLCGSRS-ENESEAARRIKTEFLVQMQGvgvDNDGILVLGATNIPWVLD 167
Cdd:COG1223    74 SYLGETARNLRKLFDFARRA-PCVIFFDEFDAIAKDRGdQNDVGEVKRVVNALLQELDG---LPSGSVVIAATNHPELLD 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 168 SAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSLtEADFRELGRKTDGYSGADISIIVRDALMQPV---RKVQSATHF 244
Cdd:COG1223   150 SALWRRFDEVIEFPLPDKEERKEILELNLKKFPLPF-ELDLKKLAKKLEGLSGADIEKVLKTALKKAIledREKVTKEDL 228


                  ...
gi 2462562010 245 KKV 247
Cdd:COG1223   229 EEA 231
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 13-180 7.30e-48

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: 158.55  E-value: 7.30e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  13 VKWSDVAGLEGAKEALKEAVILpIKFPHLFT--GKRTPwRGILLFGPPGTGKSYLAKAVATEANNStFFSISSSDLVSKW 90
Cdd:cd19501     1 VTFKDVAGCEEAKEELKEVVEF-LKNPEKFTklGAKIP-KGVLLVGPPGTGKTLLAKAVAGEAGVP-FFSISGSDFVEMF 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  91 LGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENES---EAARRIKTEFLVQMQGVGvDNDGILVLGATNIPWVLD 167
Cdd:cd19501    78 VGVGASRVRDLFEQAKKNAPCIVFIDEIDAVGRKRGAGLGgghDEREQTLNQLLVEMDGFE-SNTGVIVIAATNRPDVLD 156

                         170
                  ....*....|....*
gi 2462562010 168 SAIRR--RFEKRIYI 180
Cdd:cd19501   157 PALLRpgRFDRQVYV 171
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
9-223 8.60e-47

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


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 166.37  E-value: 8.60e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010   9 ERPNVKWSDVAGLEGAKEALKEAV-ILpiKFPHLFT--GKRTPwRGILLFGPPGTGKSYLAKAVATEAnNSTFFSISSSD 85
Cdd:COG0465   135 DKPKVTFDDVAGVDEAKEELQEIVdFL--KDPEKFTrlGAKIP-KGVLLVGPPGTGKTLLAKAVAGEA-GVPFFSISGSD 210

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  86 LV--------SKwlgeseklVKNLFQLARENKPSIIFIDEIDSLCGSRSEN------ESEaarriKT--EFLVQMQGVGV 149
Cdd:COG0465   211 FVemfvgvgaSR--------VRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGlggghdERE-----QTlnQLLVEMDGFEG 277

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2462562010 150 dNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGTTQNSlTEADFRELGRKTDGYSGADI 223
Cdd:COG0465   278 -NEGVIVIAATNRPDVLDPALLRpgRFDRQVVVDLPDVKGREAILKVHARKKPLA-PDVDLEVIARRTPGFSGADL 351
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 15-178 1.04e-46

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: 155.57  E-value: 1.04e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  15 WSDVAGLEGAKEALKEAVILPIKFPHLFT--GKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWLG 92
Cdd:cd19502     2 YEDIGGLDEQIREIREVVELPLKHPELFEelGIEPP-KGVLLYGPPGTGKTLLAKAVANHTD-ATFIRVVGSELVQKYIG 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  93 ESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAAR---RIKTEFLVQMQGVGVDNDgILVLGATNIPWVLDSA 169
Cdd:cd19502    80 EGARLVRELFEMAREKAPSIIFIDEIDAIGAKRFDSGTGGDRevqRTMLELLNQLDGFDPRGN-IKVIMATNRPDILDPA 158

                         170
                  ....*....|.
gi 2462562010 170 IRR--RFEKRI 178
Cdd:cd19502   159 LLRpgRFDRKI 169
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 17-180 1.45e-46

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: 155.04  E-value: 1.45e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  17 DVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAnNSTFFSISSSDLVSKWLGESEK 96
Cdd:cd19523     1 DIAGLGALKAAIKEEVLWPLLRPDAFSGLLRLPRSILLFGPRGTGKTLLGRCLASQL-GATFLRLRGSTLVAKWAGEGEK 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  97 LVKNLFQLARENKPSIIFIDEIDSLCGSRSENESeAARRIKTEFLVQMQGV-GVDNDGILVLGATNIPWVLDSAIRRRFE 175
Cdd:cd19523    80 ILQASFLAARCRQPSVLFISDLDALLSSQDDEAS-PVGRLQVELLAQLDGVlGSGEDGVLVVCTTSKPEEIDESLRRYFS 158


                  ....*
gi 2462562010 176 KRIYI 180
Cdd:cd19523   159 KRLLV 163
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 24-180 4.31e-45

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: 151.11  E-value: 4.31e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  24 AKEALKEAVILPIKFPHLFT--GKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWLGESEKLVKNL 101
Cdd:cd19529     1 VKQELKEAVEWPLLKPEVFKrlGIRPP-KGILLYGPPGTGKTLLAKAVATESN-ANFISVKGPELLSKWVGESEKAIREI 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 102 FQLARENKPSIIFIDEIDSLCGSR-SENESEAARRIKTEFLVQMQGVGVDNDgILVLGATNIPWVLDSAIRR--RFEKRI 178
Cdd:cd19529    79 FRKARQVAPCVIFFDEIDSIAPRRgTTGDSGVTERVVNQLLTELDGLEEMNG-VVVIAATNRPDIIDPALLRagRFDRLI 157


                  ..
gi 2462562010 179 YI 180
Cdd:cd19529   158 YI 159
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 17-181 5.71e-43

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: 5.71e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  17 DVAGLEGAKEALKEAVILPIKFPHLFtgKR---TPWRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWLGE 93
Cdd:cd19519     1 DIGGCRKQLAQIREMVELPLRHPELF--KAigiKPPRGILLYGPPGTGKTLIARAVANETG-AFFFLINGPEIMSKLAGE 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  94 SEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDgILVLGATNIPWVLDSAIRR- 172
Cdd:cd19519    78 SESNLRKAFEEAEKNAPAIIFIDEIDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH-VIVMAATNRPNSIDPALRRf 156

                         170
                  ....*....|
gi 2462562010 173 -RFEKRIYIP 181
Cdd:cd19519   157 gRFDREIDIG 166
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 11-230 9.22e-43

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 153.00  E-value: 9.22e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  11 PNVKWSDVAGLEGAKEALKEAVILPIKFPHLF--TGKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVS 88
Cdd:PTZ00361  178 PLESYADIGGLEQQIQEIKEAVELPLTHPELYddIGIKPP-KGVILYGPPGTGKTLLAKAVANETS-ATFLRVVGSELIQ 255

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  89 KWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKT---EFLVQMQGVGVDNDgILVLGATNIPWV 165
Cdd:PTZ00361  256 KYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRtmlELLNQLDGFDSRGD-VKVIMATNRIES 334

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2462562010 166 LDSAIRR--RFEKRIYIPLPEPHARAAMFKLHlgTTQNSLTE-ADFRELGRKTDGYSGADISIIVRDA 230
Cdd:PTZ00361  335 LDPALIRpgRIDRKIEFPNPDEKTKRRIFEIH--TSKMTLAEdVDLEEFIMAKDELSGADIKAICTEA 400
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 25-180 3.30e-40

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: 138.41  E-value: 3.30e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  25 KEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWLGESEKLVKNLFQ 103
Cdd:cd19528     2 KRELQELVQYPVEHPDKFLKfGMTPSKGVLFYGPPGCGKTLLAKAIANECQ-ANFISVKGPELLTMWFGESEANVRDIFD 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 104 LARENKPSIIFIDEIDSLCGSRSEN---ESEAARRIKTEFLVQMQGVGVDNDgILVLGATNIPWVLDSAIRR--RFEKRI 178
Cdd:cd19528    81 KARAAAPCVLFFDELDSIAKARGGNigdAGGAADRVINQILTEMDGMNTKKN-VFIIGATNRPDIIDPAILRpgRLDQLI 159


                  ..
gi 2462562010 179 YI 180
Cdd:cd19528   160 YI 161
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 21-180 6.50e-40

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: 137.62  E-value: 6.50e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  21 LEGAKEALKEAVILPIKFPHLFT--GKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWLGESEKLV 98
Cdd:cd19530     1 LDHVREELTMSILRPIKRPDIYKalGIDLP-TGVLLYGPPGCGKTLLAKAVANESG-ANFISVKGPELLNKYVGESERAV 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  99 KNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGvDNDGILVLGATNIPWVLDSAIRR--RFEK 176
Cdd:cd19530    79 RQVFQRARASAPCVIFFDEVDALVPKRGDGGSWASERVVNQLLTEMDGLE-ERSNVFVIAATNRPDIIDPAMLRpgRLDK 157


                  ....
gi 2462562010 177 RIYI 180
Cdd:cd19530   158 TLYV 161
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
15-248 1.07e-38

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 144.79  E-value: 1.07e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  15 WSDVAGLEGAKEALKEAVIL---PIKFPHLftGKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWL 91
Cdd:PRK10733  151 FADVAGCDEAKEEVAELVEYlrePSRFQKL--GGKIP-KGVLMVGPPGTGKTLLAKAIAGEAK-VPFFTISGSDFVEMFV 226

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  92 GESEKLVKNLFQLARENKPSIIFIDEIDS--------LCGSRSENEseaarRIKTEFLVQMQGVGvDNDGILVLGATNIP 163
Cdd:PRK10733  227 GVGASRVRDMFEQAKKAAPCIIFIDEIDAvgrqrgagLGGGHDERE-----QTLNQMLVEMDGFE-GNEGIIVIAATNRP 300

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 164 WVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGTTQNSlTEADFRELGRKTDGYSGADISIIVRDALMQPVR---KV 238
Cdd:PRK10733  301 DVLDPALLRpgRFDRQVVVGLPDVRGREQILKVHMRRVPLA-PDIDAAIIARGTPGFSGADLANLVNEAALFAARgnkRV 379

                         250
                  ....*....|
gi 2462562010 239 QSATHFKKVR 248
Cdd:PRK10733  380 VSMVEFEKAK 389
ftsH CHL00176
cell division protein; Validated
 13-237 1.09e-38

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 144.81  E-value: 1.09e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  13 VKWSDVAGLEGAKEALKEAVILpIKFPHLFT--GKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKW 90
Cdd:CHL00176  180 ITFRDIAGIEEAKEEFEEVVSF-LKKPERFTavGAKIP-KGVLLVGPPGTGKTLLAKAIAGEAE-VPFFSISGSEFVEMF 256

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  91 LGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSEN------ESEaarRIKTEFLVQMQGVGvDNDGILVLGATNIPW 164
Cdd:CHL00176  257 VGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGigggndERE---QTLNQLLTEMDGFK-GNKGVIVIAATNRVD 332

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2462562010 165 VLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLgtTQNSLTEADFRE-LGRKTDGYSGADISIIVRDALMQPVRK 237
Cdd:CHL00176  333 ILDAALLRpgRFDRQITVSLPDREGRLDILKVHA--RNKKLSPDVSLElIARRTPGFSGADLANLLNEAAILTARR 406
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 17-179 1.52e-38

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: 134.56  E-value: 1.52e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  17 DVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEA----NNSTFFSISSSDLVSKWL 91
Cdd:cd19517     1 DIGGLSHYINQLKEMVFFPLLYPEVFAKfKITPPRGVLFHGPPGTGKTLMARALAAECskggQKVSFFMRKGADCLSKWV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  92 GESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQgvGVDNDG-ILVLGATNIPWVLDSAI 170
Cdd:cd19517    81 GEAERQLRLLFEEAYRMQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMD--GLDNRGqVVVIGATNRPDALDPAL 158

                         170
                  ....*....|.
gi 2462562010 171 RR--RFEKRIY 179
Cdd:cd19517   159 RRpgRFDREFY 169
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 17-178 1.69e-37

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: 131.76  E-value: 1.69e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  17 DVAGLEGAKEALKEAVILPIKFPHLF--TGKRTPwRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWLGES 94
Cdd:cd19518     1 DIGGMDSTLKELCELLIHPILPPEYFqhLGVEPP-RGVLLHGPPGCGKTMLANAIAGELK-VPFLKISATEIVSGVSGES 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  95 EKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND---GILVLGATNIPWVLDSAIR 171
Cdd:cd19518    79 EEKIRELFDQAISNAPCIVFIDEIDAITPKRESAQREMERRIVSQLLTCMDELNNEKTaggPVLVIGATNRPDSLDPALR 158


                  ....*....
gi 2462562010 172 R--RFEKRI 178
Cdd:cd19518   159 RagRFDREI 167
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 24-179 2.89e-37

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: 130.63  E-value: 2.89e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  24 AKEALKEAVILPIKFPHLFTGKRTPWR-GILLFGPPGTGKSYLAKAVATEANNStFFSISSSDLVSKWLGESEKLVKNLF 102
Cdd:cd19526     1 VKKALEETIEWPSKYPKIFASSPLRLRsGILLYGPPGCGKTLLASAIASECGLN-FISVKGPELLNKYIGASEQNVRDLF 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2462562010 103 QLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVdNDGILVLGATNIPWVLDSAIRR--RFEKRIY 179
Cdd:cd19526    80 SRAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTQLDGVEG-LDGVYVLAATSRPDLIDPALLRpgRLDKLVY 157
Vps4_C pfam09336
Vps4 C terminal oligomerization domain; This domain is found at the C terminal of ATPase ...
 263-323 3.13e-37

Vps4 C terminal oligomerization domain; This domain is found at the C terminal of ATPase proteins involved in vacuolar sorting. It forms an alpha helix structure and is required for oligomerization.


Pssm-ID: 462762 [Multi-domain]  Cd Length: 61  Bit Score: 127.23  E-value: 3.13e-37
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2462562010 263 LTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMSDMLRSLSNTKPTVNEHDLLKLKKFTEDFG 323
Cdd:pfam09336   1 LTPCSPGDPGAIEMTWMDIPSDKLLEPPVTMKDFLKALKSSRPTVSKEDLEKYEEFTKEFG 61
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 25-180 1.01e-36

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: 129.56  E-value: 1.01e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  25 KEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAnNSTFFSISSSDLVSKWLGESEKLVKNLFQL 104
Cdd:cd19527     2 KKEILDTIQLPLEHPELFSSGLRKRSGILLYGPPGTGKTLLAKAIATEC-SLNFLSVKGPELINMYIGESEANVREVFQK 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 105 ARENKPSIIFIDEIDSLCGSR--SENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYI 180
Cdd:cd19527    81 ARDAKPCVIFFDELDSLAPSRgnSGDSGGVMDRVVSQLLAELDGMSSSGQDVFVIGATNRPDLLDPALLRpgRFDKLLYL 160
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 19-182 1.62e-28

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: 107.62  E-value: 1.62e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  19 AGLEGAKEALKEAVilpikfphlftgKRTPWRGILLFGPPGTGKSYLAKAVATEA--NNSTFFSISSSDLVSKWLGESEK 96
Cdd:cd00009     1 VGQEEAIEALREAL------------ELPPPKNLLLYGPPGTGKTTLARAIANELfrPGAPFLYLNASDLLEGLVVAELF 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  97 ---LVKNLFQLARENKPSIIFIDEIDSLcgsrseneSEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWV--LDSAIR 171
Cdd:cd00009    69 ghfLVRLLFELAEKAKPGVLFIDEIDSL--------SRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLgdLDRALY 140

                         170
                  ....*....|.
gi 2462562010 172 RRFEKRIYIPL 182
Cdd:cd00009   141 DRLDIRIVIPL 151
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 48-184 2.09e-20

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: 85.89  E-value: 2.09e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010   48 PWRGILLFGPPGTGKSYLAKAVATEAN--NSTFFSISSSDL--------------VSKWLGESEKLVKNLFQLARENKPS 111
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGppGGGVIYIDGEDIleevldqllliivgGKKASGSGELRLRLALALARKLKPD 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2462562010  112 IIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGvgvdndGILVLGATNIPWVLDSA-IRRRFEKRIYIPLPE 184
Cdd:smart00382  81 VLILDEITSLLDAEQEALLLLLEELRLLLLLKSEK------NLTVILTTNDEKDLGPAlLRRRFDRRIVLLLIL 148
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 50-180 1.47e-19

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: 84.46  E-value: 1.47e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  50 RGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPS--------IIFIDEIDSL 121
Cdd:cd19504    36 KGILLYGPPGTGKTLMARQIGKMLNAREPKIVNGPEILNKYVGESEANIRKLFADAEEEQRRlgansglhIIIFDEIDAI 115

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2462562010 122 CGSR--SENESEAARRIKTEFLVQMQGVGVDNDgILVLGATNIPWVLDSAIRR--RFEKRIYI 180
Cdd:cd19504   116 CKQRgsMAGSTGVHDTVVNQLLSKIDGVEQLNN-ILVIGMTNRKDLIDEALLRpgRLEVQMEI 177
ycf46 CHL00195
Ycf46; Provisional
 11-226 2.87e-17

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 81.99  E-value: 2.87e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  11 PNVKWSDVAGLEGAKEALKeavilpiKFPHLFT------GKRTPwRGILLFGPPGTGKSYLAKAVATEAN--------NS 76
Cdd:CHL00195  223 VNEKISDIGGLDNLKDWLK-------KRSTSFSkqasnyGLPTP-RGLLLVGIQGTGKSLTAKAIANDWQlpllrldvGK 294

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  77 TFFSIsssdlvskwLGESEKLVKNLFQLARENKPSIIFIDEID-SLCGSRSENESEAARRIKTEFLV----QMQGVGVdn 151
Cdd:CHL00195  295 LFGGI---------VGESESRMRQMIRIAEALSPCILWIDEIDkAFSNSESKGDSGTTNRVLATFITwlseKKSPVFV-- 363

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2462562010 152 dgilVLGATNIPWVLDSAIRR-RFEKRIYIPLPEPHARAAMFKLHLGTTQ-NSLTEADFRELGRKTDGYSGADI--SII 226
Cdd:CHL00195  364 ----VATANNIDLLPLEILRKgRFDEIFFLDLPSLEEREKIFKIHLQKFRpKSWKKYDIKKLSKLSNKFSGAEIeqSII 438
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 17-145 5.92e-16

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: 73.94  E-value: 5.92e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  17 DVAGLEGAKEALKE---AVILPIKFPHLftgkrTPWRGILLFGPPGTGKSYLAKAVATEANnSTFFSISSSDLVSKWLGE 93
Cdd:cd19507     1 DVGGLDNLKDWLKKrkaAFSKQASAYGL-----PTPKGLLLVGIQGTGKSLTAKAIAGVWQ-LPLLRLDMGRLFGGLVGE 74

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2462562010  94 SEKLVKNLFQLARENKPSIIFIDEIDS-LCGSRSENESEAARRIKTEFLVQMQ 145
Cdd:cd19507    75 SESRLRQMIQTAEAIAPCVLWIDEIEKgFSNADSKGDSGTSSRVLGTFLTWLQ 127
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 50-180 6.15e-15

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: 72.09  E-value: 6.15e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  50 RGILLFGPPGTGKSYLAKAVATEAN--------NSTFFSISSSDLVSKWLGESEKLVKNLFQLARE---NKPSIIF--ID 116
Cdd:cd19508    53 RLVLLHGPPGTGKTSLCKALAQKLSirlssryrYGQLIEINSHSLFSKWFSESGKLVTKMFQKIQElidDKDALVFvlID 132

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2462562010 117 EIDSLCGSR----SENESEAARRIKTEFLVQMQGVGvDNDGILVLGATNIPWVLDSAIRRRFEKRIYI 180
Cdd:cd19508   133 EVESLAAARsassSGTEPSDAIRVVNAVLTQIDRIK-RYHNNVILLTSNLLEKIDVAFVDRADIKQYI 199
RecA-like_ATAD3-like cd19512
ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ...
 46-178 2.11e-11

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: 61.00  E-value: 2.11e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  46 RTPWRGILLFGPPGTGKSYLAKAVATEANNStfFSISSSDLVSKWLGESEKLVKNLFQLA-RENKPSIIFIDEIDS-LCG 123
Cdd:cd19512    19 KGLYRNILFYGPPGTGKTLFAKKLALHSGMD--YAIMTGGDVAPMGREGVTAIHKVFDWAnTSRRGLLLFVDEADAfLRK 96

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2462562010 124 SRSENESEAARRIKTEFLVQMqgvGVDNDGILVLGATNIPWVLDSAIRRRFEKRI 178
Cdd:cd19512    97 RSTEKISEDLRAALNAFLYRT---GEQSNKFMLVLASNQPEQFDWAINDRIDEMV 148
RecA-like_Ycf2 cd19505
ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; ...
 48-170 3.99e-11

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: 60.47  E-value: 3.99e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  48 PWRGILLFGPPGTGKSYLAKAVATEA--------------NNSTFFSISSSDLVSKWlGESEKLVKNLFQLARENKPSII 113
Cdd:cd19505    11 PSKGILLIGSIETGRSYLIKSLAANSyvplirislnkllyNKPDFGNDDWIDGMLIL-KESLHRLNLQFELAKAMSPCII 89

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 114 FIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND---GILVLGATNIPWVLDSAI 170
Cdd:cd19505    90 WIPNIHELNVNRSTQNLEEDPKLLLGLLLNYLSRDFEKSstrNILVIASTHIPQKVDPAL 149
RecA-like_IQCA1 cd19506
ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein ...
 50-180 9.87e-09

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: 53.69  E-value: 9.87e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  50 RGILLFGPPGTGKSYLAKAVATEAnNSTFFSISSSDLVSKWLGES--EKLVKNLFQLARENKPSIIFIDEID-----SLC 122
Cdd:cd19506    27 KSLLLAGPSGVGKKMLVHAICTET-GANLFNLSPSNIAGKYPGKNglQMMLHLVLKVARQLQPSVIWIGDAEktfykKVP 105

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2462562010 123 GSRSENESEAARRIKTEFLVQMQGvgvdNDGILVLGATNIPWVLD-SAIRRRFEKRIYI 180
Cdd:cd19506   106 KTEKQLDPKRLKKDLPKILKSLKP----EDRVLIVGTTSRPFEADlKSFCKVYNKIILI 160
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 28-180 2.93e-08

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: 52.35  E-value: 2.93e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  28 LKEAVILPIKFPHLFTGKRTPW-RGILLFGPPGTGKSYLAKAVATEANNSTF-FSISSSDLvskwlgeSEKLVKNLfqLA 105
Cdd:cd19510     1 IIDDLKDFIKNEDWYNDRGIPYrRGYLLYGPPGTGKSSFIAALAGELDYDICdLNLSEVVL-------TDDRLNHL--LN 71

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010 106 RENKPSIIFIDEIDSLCGSRSENESEaarRIKTEFLVQMQGVGVDN--DGI------LVLGATNIPWVLDSAIRR--RFE 175
Cdd:cd19510    72 TAPKQSIILLEDIDAAFESREHNKKN---PSAYGGLSRVTFSGLLNalDGVasseerIVFMTTNHIERLDPALIRpgRVD 148


                  ....*
gi 2462562010 176 KRIYI 180
Cdd:cd19510   149 MKIYM 153
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 207-248 3.52e-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: 49.07  E-value: 3.52e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2462562010 207 DFRELGRKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVR 248
Cdd:pfam17862   3 DLEELAERTEGFSGADLEALCREAALAALRRGLEAVTQEDLE 44
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 51-174 5.26e-07

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: 48.06  E-value: 5.26e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  51 GILLFGPPGTGKSYLAKAVATEANNSTFFSI------SSSDLVSKWL---GESEKLVKNLFQLAREnkPSIIFIDEIDSL 121
Cdd:pfam07728   1 GVLLVGPPGTGKTELAERLAAALSNRPVFYVqltrdtTEEDLFGRRNidpGGASWVDGPLVRAARE--GEIAVLDEINRA 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2462562010 122 cgsrsenESEAARRIKTEF----LVQMQG---VGVDNDGILVLGATNIP----WVLDSAIRRRF 174
Cdd:pfam07728  79 -------NPDVLNSLLSLLderrLLLPDGgelVKAAPDGFRLIATMNPLdrglNELSPALRSRF 135
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 52-118 1.04e-06

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.


Pssm-ID: 439516  Cd Length: 232  Bit Score: 49.01  E-value: 1.04e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2462562010  52 ILLFGPPGTGKSYLAKAV---ATEANNSTFFsISSSDLVSKW-LGESE-KLVKNLFQLARenkPSIIFIDEI 118
Cdd:NF038214   93 VLLLGPPGTGKTHLAIALgyaACRQGYRVRF-TTAADLVEQLaQARADgRLGRLLRRLAR---YDLLIIDEL 160
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 52-118 1.72e-06

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 49.31  E-value: 1.72e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2462562010  52 ILLFGPPGTGKSYLAKAVATEAnNSTFFSISSS-----DLvskwlgesEKLVKNLFQLARENKPSIIFIDEI 118
Cdd:PRK13342   39 MILWGPPGTGKTTLARIIAGAT-DAPFEALSAVtsgvkDL--------REVIEEARQRRSAGRRTILFIDEI 101
TIP49 pfam06068
TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and ...
 20-101 2.32e-06

TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities.TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases.


Pssm-ID: 399217 [Multi-domain]  Cd Length: 347  Bit Score: 48.46  E-value: 2.32e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  20 GLEGAKEALKEA-VILpikfpHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNST-FFSISSSDLVSKWLGESEKL 97
Cdd:pfam06068  25 GLVGQEKAREAAgVIV-----EMIKEGKIAGRAVLIAGPPGTGKTALAIAISKELGEDTpFTSISGSEVYSLEMKKTEAL 99


                  ....
gi 2462562010  98 VKNL 101
Cdd:pfam06068 100 TQAF 103
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 52-118 5.50e-06

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


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 47.74  E-value: 5.50e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2462562010  52 ILLFGPPGTGKSYLAKAVATEAnNSTFFSIS--SSdlvskwlGESEklVKNLFQLAREN----KPSIIFIDEI 118
Cdd:COG2256    52 MILWGPPGTGKTTLARLIANAT-DAEFVALSavTS-------GVKD--IREVIEEARERraygRRTILFVDEI 114
T7SS_EccA TIGR03922
type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ...
 50-181 8.09e-06

type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the actinobacterial flavor of type VII secretion systems. Species such as Mycobacterium tuberculosis have several instances of this system per genome, designated EccA1, EccA2, etc. [Protein fate, Protein and peptide secretion and trafficking]


Pssm-ID: 188437 [Multi-domain]  Cd Length: 557  Bit Score: 47.15  E-value: 8.09e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  50 RGILLFGPPGTGKSYLAKAVA------TEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLAREnkpSIIFIDEIDSLCG 123
Cdd:TIGR03922 313 NHMLFAGPPGTGKTTIARVVAkiycglGVLRKPLVREVSRADLIGQYIGESEAKTNEIIDSALG---GVLFLDEAYTLVE 389

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2462562010 124 SRSENESEAARRIKTEFLVQMQGvgvDNDGILVLGA---TNIPWVLDS--AIRRRFEKRIYIP 181
Cdd:TIGR03922 390 TGYGQKDPFGLEAIDTLLARMEN---DRDRLVVIGAgyrKDLDKFLEVneGLRSRFTRVIEFP 449
McrB COG1401
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
 52-118 1.32e-05

5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms];


Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 46.69  E-value: 1.32e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  52 ILLFGPPGTGKSYLAKAVA---TEANNSTFFSI------SSSDLVskwLGESEKLVKNLFQL-----------AREN--K 109
Cdd:COG1401   224 VILAGPPGTGKTYLARRLAealGGEDNGRIEFVqfhpswSYEDFL---LGYRPSLDEGKYEPtpgiflrfclkAEKNpdK 300


                  ....*....
gi 2462562010 110 PSIIFIDEI 118
Cdd:COG1401   301 PYVLIIDEI 309
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
50-118 1.36e-05

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


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 45.54  E-value: 1.36e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2462562010  50 RGILLFGPPGTGKSYLAKAVATEA---NNSTFFsISSSDLVSKWL-----GESEKLVKnlfQLArenKPSIIFIDEI 118
Cdd:COG1484   100 ENLILLGPPGTGKTHLAIALGHEAcraGYRVRF-TTAPDLVNELKearadGRLERLLK---RLA---KVDLLILDEL 169
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
50-97 2.67e-05

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


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 45.73  E-value: 2.67e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2462562010  50 RGILLFGPPGTGKSYLAKAVATEANNST-FFSISSSDLVSKWLGESEKL 97
Cdd:COG1224    65 KGILIVGPPGTGKTALAVAIARELGEDTpFVAISGSEIYSAELKKTEFL 113
ycf2 CHL00206
Ycf2; Provisional
 47-150 3.88e-05

Ycf2; Provisional


Pssm-ID: 214396 [Multi-domain]  Cd Length: 2281  Bit Score: 45.67  E-value: 3.88e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010   47 TPWRGILLFGPPGTGKSYLAKAVATeanNSTFFSIsssdlvskwlgeseKLVKNLFQlarENKPSIIFIDEIDSLCGSRS 126
Cdd:CHL00206  1628 SPSRGILVIGSIGTGRSYLVKYLAT---NSYVPFI--------------TVFLNKFL---DNKPKGFLIDDIDIDDSDDI 1687

                           90       100
                   ....*....|....*....|....
gi 2462562010  127 ENESEAARRIKTEFLVQMQGVGVD 150
Cdd:CHL00206  1688 DDSDDIDRDLDTELLTMMNALTMD 1711
AAA_2 pfam07724
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ...
 52-119 5.58e-05

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: 42.95  E-value: 5.58e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  52 ILLFGPPGTGKSYLAKAVATEANNS--TFFSISSSDL-----VSKWLGESEKLVK-----NLFQLARENKPSIIFIDEID 119
Cdd:pfam07724   6 FLFLGPTGVGKTELAKALAELLFGDerALIRIDMSEYmeehsVSRLIGAPPGYVGyeeggQLTEAVRRKPYSIVLIDEIE 85
COG1373 COG1373
Predicted ATPase, AAA+ superfamily [General function prediction only];
52-118 8.57e-05

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


Pssm-ID: 440984 [Multi-domain]  Cd Length: 405  Bit Score: 43.78  E-value: 8.57e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2462562010  52 ILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLarENKPSIIFIDEI 118
Cdd:COG1373    23 VVITGPRQVGKTTLLKQLAKELENILYINLDDPRLRALAEEDPDDLLEALKEL--YPGKTYLFLDEI 87
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
52-121 9.98e-05

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 43.58  E-value: 9.98e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2462562010  52 ILLFGPPGTGKSYLAKAVATEANNStfFSISS-------SDLVSkwlgesekLVKNLfqlaRENkpSIIFIDEIDSL 121
Cdd:PRK00080   54 VLLYGPPGLGKTTLANIIANEMGVN--IRITSgpalekpGDLAA--------ILTNL----EEG--DVLFIDEIHRL 114
clpA PRK11034
ATP-dependent Clp protease ATP-binding subunit; Provisional
 53-185 1.43e-04

ATP-dependent Clp protease ATP-binding subunit; Provisional


Pssm-ID: 236828 [Multi-domain]  Cd Length: 758  Bit Score: 43.67  E-value: 1.43e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  53 LLFGPPGTGKSYLAKAVA---TEAN------NSTFFSISSSDLV--SKWLGESEKLVKNLFQLARENKPSIIFIDEIDSL 121
Cdd:PRK11034  211 LLVGESGVGKTAIAEGLAwriVQGDvpevmaDCTIYSLDIGSLLagTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTI 290

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2462562010 122 --CGSRSENESEAARRIKTEflvqmqgvgVDNDGILVLGAT------NIpWVLDSAIRRRFEKriyIPLPEP 185
Cdd:PRK11034  291 igAGAASGGQVDAANLIKPL---------LSSGKIRVIGSTtyqefsNI-FEKDRALARRFQK---IDITEP 349
RecA-like_superfamily cd01120
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ...
 52-141 1.44e-04

RecA-like_NTPases; RecA-like NTPases. This superfamily 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: 410865 [Multi-domain]  Cd Length: 119  Bit Score: 40.95  E-value: 1.44e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  52 ILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLvskwlgesEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESE 131
Cdd:cd01120     1 ILITGPPGSGKTTLLLQFAEQALLSDEPVIFISFL--------DTILEAIEDLIEEKKLDIIIIDSLSSLARASQGDRSS 72

                          90
                  ....*....|
gi 2462562010 132 AARRIKTEFL 141
Cdd:cd01120    73 ELLEDLAKLL 82
clpC CHL00095
Clp protease ATP binding subunit
 50-180 1.66e-04

Clp protease ATP binding subunit


Pssm-ID: 214361 [Multi-domain]  Cd Length: 821  Bit Score: 43.51  E-value: 1.66e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  50 RGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLV-----------SKWLGESEKLVKNLFQLARENKPSIIFIDEI 118
Cdd:CHL00095  201 NNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVitldiglllagTKYRGEFEERLKRIFDEIQENNNIILVIDEV 280

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2462562010 119 DSLCG-SRSENESEAARRIKTE-FLVQMQgvgvdndgilVLGATNIPWV-----LDSAIRRRFEKrIYI 180
Cdd:CHL00095  281 HTLIGaGAAEGAIDAANILKPAlARGELQ----------CIGATTLDEYrkhieKDPALERRFQP-VYV 338
IstB_IS21 pfam01695
IstB-like ATP binding protein; This protein contains an ATP/GTP binding P-loop motif. It is ...
 52-118 1.76e-04

IstB-like ATP binding protein; This protein contains an ATP/GTP binding P-loop motif. It is found associated with IS21 family insertion sequences. The function of this protein is unknown, but it may perform a transposase function.


Pssm-ID: 426385 [Multi-domain]  Cd Length: 238  Bit Score: 42.43  E-value: 1.76e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2462562010  52 ILLFGPPGTGKSYLAKAVATEA---NNSTFFsISSSDLVSKWLGESE--KLVKNLFQLARenkPSIIFIDEI 118
Cdd:pfam01695  95 VVLLGPPGVGKTHLAIALGVEAcraGYSVRF-TSAADLVNQLKRAHGdgKLTRKLQQLLK---PDVLILDEW 162
PRK08116 PRK08116
hypothetical protein; Validated
 50-72 4.64e-04

hypothetical protein; Validated


Pssm-ID: 236153 [Multi-domain]  Cd Length: 268  Bit Score: 41.16  E-value: 4.64e-04
                          10        20
                  ....*....|....*....|...
gi 2462562010  50 RGILLFGPPGTGKSYLAKAVATE 72
Cdd:PRK08116  115 VGLLLWGSVGTGKTYLAACIANE 137
RecA-like_Lon cd19500
lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an ...
 17-132 6.54e-04

lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an evolutionarily conserved ATP-dependent serine protease, present in bacteria and eukaryotic mitochondria and peroxisomes, which mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Lon protease is both an ATP-dependent peptidase and a protein-activated ATPase. This RecA-like Lon domain 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: 410908 [Multi-domain]  Cd Length: 182  Bit Score: 39.85  E-value: 6.54e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  17 DVAGLEGAKEALKEavilpikfpHLFTGKRTP-WRG-ILLF-GPPGTGKSYLAKAVAtEANNSTFFSISssdlvskwLG- 92
Cdd:cd19500    11 DHYGLEDVKERILE---------YLAVRKLKGsMKGpILCLvGPPGVGKTSLGKSIA-RALGRKFVRIS--------LGg 72

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2462562010  93 ---ESE--------------KLVKNLFQlARENKPsIIFIDEIDSLCGSRSENESEA 132
Cdd:cd19500    73 vrdEAEirghrrtyvgampgRIIQALKK-AGTNNP-VFLLDEIDKIGSSFRGDPASA 127
AAA_18 pfam13238
AAA domain;
52-137 1.19e-03

AAA domain;


Pssm-ID: 433052 [Multi-domain]  Cd Length: 128  Bit Score: 38.56  E-value: 1.19e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  52 ILLFGPPGTGKSYLAKAVATEANNSTFFS--ISSSDLVSKWLGES-----------EKLVKNLFQLARENKPSIIFIDEI 118
Cdd:pfam13238   1 ILITGTPGVGKTTLAKELSKRLGFGDNVRdlALENGLVLGDDPETreskrldedklDRLLDLLEENAALEEGGNLIIDGH 80

                          90
                  ....*....|....*....
gi 2462562010 119 dslcgsRSENESEAARRIK 137
Cdd:pfam13238  81 ------LAELEPERAKDLV 93
Mg_chelatase pfam01078
Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that ...
 15-71 1.27e-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: 39.44  E-value: 1.27e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  15 WSDVAGLEGAKEALKEAVIlpikfphlftgkrtpwrG---ILLFGPPGTGKSYLAKAVAT 71
Cdd:pfam01078   2 LADVKGQEQAKRALEIAAA-----------------GghnLLMIGPPGSGKTMLAKRLPG 44
PRK04195 PRK04195
replication factor C large subunit; Provisional
 16-74 2.95e-03

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 39.13  E-value: 2.95e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2462562010  16 SDVAGLEGAKEALKEAVIlpiKFPHlftgkRTPWRGILLFGPPGTGKSYLAKAVATEAN 74
Cdd:PRK04195   14 SDVVGNEKAKEQLREWIE---SWLK-----GKPKKALLLYGPPGVGKTSLAHALANDYG 64
PRK08181 PRK08181
transposase; Validated
 52-89 3.03e-03

transposase; Validated


Pssm-ID: 136670 [Multi-domain]  Cd Length: 269  Bit Score: 38.76  E-value: 3.03e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 2462562010  52 ILLFGPPGTGKSYLAKAVA---TEANNSTFFSiSSSDLVSK 89
Cdd:PRK08181  109 LLLFGPPGGGKSHLAAAIGlalIENGWRVLFT-RTTDLVQK 148
PRK09183 PRK09183
transposase/IS protein; Provisional
 52-127 3.38e-03

transposase/IS protein; Provisional


Pssm-ID: 181681  Cd Length: 259  Bit Score: 38.53  E-value: 3.38e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462562010  52 ILLFGPPGTGKSYLAKAV---ATEANNSTFFsISSSDLVSKW-LGESEKLVKNLFQLArENKPSIIFIDEIDSLCGSRSE 127
Cdd:PRK09183  105 IVLLGPSGVGKTHLAIALgyeAVRAGIKVRF-TTAADLLLQLsTAQRQGRYKTTLQRG-VMAPRLLIIDEIGYLPFSQEE 182
DnaX COG2812
DNA polymerase III, gamma/tau subunits [Replication, recombination and repair];
14-70 4.09e-03

DNA polymerase III, gamma/tau subunits [Replication, recombination and repair];


Pssm-ID: 442061 [Multi-domain]  Cd Length: 340  Bit Score: 38.63  E-value: 4.09e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2462562010  14 KWSDVAGLEGAKEALKEAVILPiKFPH--LFTGkrtpwrgillfgPPGTGKSYLAKAVA 70
Cdd:COG2812     8 TFDDVVGQEHVVRTLKNALASG-RLAHayLFTG------------PRGVGKTTLARILA 53
PRK13341 PRK13341
AAA family ATPase;
53-118 4.33e-03

AAA family ATPase;


Pssm-ID: 237354 [Multi-domain]  Cd Length: 725  Bit Score: 38.88  E-value: 4.33e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2462562010  53 LLFGPPGTGKSYLAKAVATEAnNSTFFSISSSDLVSKWLGESEKLVKNlfQLARENKPSIIFIDEI 118
Cdd:PRK13341   56 ILYGPPGVGKTTLARIIANHT-RAHFSSLNAVLAGVKDLRAEVDRAKE--RLERHGKRTILFIDEV 118
PRK12402 PRK12402
replication factor C small subunit 2; Reviewed
 10-82 5.21e-03

replication factor C small subunit 2; Reviewed


Pssm-ID: 237090 [Multi-domain]  Cd Length: 337  Bit Score: 38.05  E-value: 5.21e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2462562010  10 RPnVKWSDVAGLEGAKEALKEAVILPIkFPHLftgkrtpwrgiLLFGPPGTGKSYLAKAVATEA------NNSTFFSIS 82
Cdd:PRK12402   10 RP-ALLEDILGQDEVVERLSRAVDSPN-LPHL-----------LVQGPPGSGKTAAVRALARELygdpweNNFTEFNVA 75
RNA_helicase pfam00910
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding ...
 52-72 6.89e-03

RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding during viral RNA replication. Members of this family are found in a variety of single stranded RNA viruses.


Pssm-ID: 459992  Cd Length: 102  Bit Score: 35.66  E-value: 6.89e-03
                          10        20
                  ....*....|....*....|.
gi 2462562010  52 ILLFGPPGTGKSYLAKAVATE 72
Cdd:pfam00910   1 IWLYGPPGCGKSTLAKYLARA 21
COG0645 COG0645
Predicted kinase, contains AAA domain [General function prediction only];
52-72 8.76e-03

Predicted kinase, contains AAA domain [General function prediction only];


Pssm-ID: 440410 [Multi-domain]  Cd Length: 164  Bit Score: 36.43  E-value: 8.76e-03
                          10        20
                  ....*....|....*....|.
gi 2462562010  52 ILLFGPPGTGKSYLAKAVATE 72
Cdd:COG0645     2 ILVCGLPGSGKSTLARALAER 22
 
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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