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Conserved domains on  [gi|767933042|ref|XP_011530711|]
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probable ATP-dependent RNA helicase DDX60-like isoform X10 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DEAD-like_helicase_N super family cl28899
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase ...
 129-312 2.53e-103

N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase superfamily is a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. The N-terminal domain contains the ATP-binding region.


The actual alignment was detected with superfamily member cd18025:

Pssm-ID: 475120 [Multi-domain]  Cd Length: 192  Bit Score: 322.40  E-value: 2.53e-103
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  129 IPNAWQQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTL-PAGRT 207
Cdd:cd18025     1 NPDAWQRELLDIVDRRESALIVAPTSSGKTFISYYCMEKVLRESDDGVVVYVAPTKALVNQVVAEVYARFSKKYpPSGKS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  208 LCGAFTRDYCHN-VLNCQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIRCPFLVLSAT 286
Cdd:cd18025    81 LWGVFTRDYRHNnPMNCQVLITVPECLEILLLSPHNASWVPRIKYVIFDEIHSIGQSEDGAVWEQLLLLIPCPFLALSAT 160

                         170       180
                  ....*....|....*....|....*.
gi 767933042  287 INNPNLLTKWLQSVKQYWKQADKIME 312
Cdd:cd18025   161 IGNPQKFHEWLQSVQRARKAELKKIE 186
P-loop_NTPase super family cl38936
P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain ...
 617-711 3.83e-34

P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a hydrophobic residue). The Walker A and B motifs bind the beta-gamma phosphate moiety of the bound nucleotide (typically ATP or GTP) and the Mg2+ cation, respectively. The P-loop NTPases are involved in diverse cellular functions, and they can be divided into two major structural classes: the KG (kinase-GTPase) class which includes Ras-like GTPases and its circularly permutated YlqF-like; and the ASCE (additional strand catalytic E) class which includes ATPase Binding Cassette (ABC), DExD/H-like helicases, 4Fe-4S iron sulfur cluster binding proteins of NifH family, RecA-like F1-ATPases, and ATPases Associated with a wide variety of Activities (AAA). Also included are a diverse set of nucleotide/nucleoside kinase families.


The actual alignment was detected with superfamily member cd18795:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 154  Bit Score: 128.44  E-value: 3.83e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  617 FTRHGKELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFAQDSVY-------LDALN 689
Cdd:cd18795    51 SSRKECEKTAKDLAGIAFHHAGLTREDRELVEELFREGLIKVLVATSTLAAGVNLPARTVIIKGTQRYdgkgyreLSPLE 130

                          90       100
                  ....*....|....*....|..
gi 767933042  690 YRQMSGRAGRRGQDLLGNVYFF 711
Cdd:cd18795   131 YLQMIGRAGRPGFDTRGEAIIM 152
Dob10 super family cl34780
Superfamily II RNA helicase [Replication, recombination and repair];
134-776 7.27e-31

Superfamily II RNA helicase [Replication, recombination and repair];


The actual alignment was detected with superfamily member COG4581:

Pssm-ID: 443638 [Multi-domain]  Cd Length: 751  Bit Score: 130.83  E-value: 7.27e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  134 QQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESdvGVVVYVAPAKSLVGQvaatvenRFtktlpagRTLCGAFT 213
Cdd:COG4581    30 QEEAILALEAGRSVLVAAPTGSGKTLVAEFAIFLALARG--RRSFYTAPIKALSNQ-------KF-------FDLVERFG 93

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  214 RDychNV--------LNCQVLITVpeC-FEIL---LLAPHRQkwVERIRYVIFDEVHYLG-REVGAkFWELllVIIRCP- 279
Cdd:COG4581    94 AE---NVglltgdasVNPDAPIVV--MtTEILrnmLYREGAD--LEDVGVVVMDEFHYLAdPDRGW-VWEE--PIIHLPa 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  280 ---FLVLSATINNPNLLTKWLQSVKQywkqadkimeekcisekqadkclnflqdhsyknqsyEVRLVLCGERYNDLEKHI 356
Cdd:COG4581   164 rvqLVLLSATVGNAEEFAEWLTRVRG------------------------------------ETAVVVSEERPVPLEFHY 207

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  357 CsvkhddvyfdhfhpcaaLTTDIIEKYGFPPDLTLTPQesiqlydtmaqVWETwpraqelcpeefilfknkivikkldar 436
Cdd:COG4581   208 L-----------------VTPRLFPLFRVNPELLRPPS-----------RHEV--------------------------- 232

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  437 kyeenlkaeltnwikngqvkkvkrvlknlspdslssskdmvkmfpllVEKLRQMDKLPAIFFLFKnddvgkRAGsvctfl 516
Cdd:COG4581   233 -----------------------------------------------IEELDRGGLLPAIVFIFS------RRG------ 253

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  517 ektetkshphteCHSYVFAIdevlekvrkTQKRISTKKnpkkaeklERKKVYRAeyinflenlkILEISEDCTyadvkal 596
Cdd:COG4581   254 ------------CDEAAQQL---------LSARLTTKE--------ERAEIREA----------IDEFAEDFS------- 287

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  597 hteitrnkdstlervlprvrfTRHGKELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSV 676
Cdd:COG4581   288 ---------------------VLFGKTLSRLLRRGIAVHHAGMLPKYRRLVEELFQAGLLKVVFATDTLAVGINMPARTV 346

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  677 VFAQDS-------VYLDALNYRQMSGRAGRRGQDLLGNVY-----FFDiplPKIKRLLASSVPE-LRGQFPLSITLVLRl 743
Cdd:COG4581   347 VFTKLSkfdgerhRPLTAREFHQIAGRAGRRGIDTEGHVVvlapeHDD---PKKFARLASARPEpLRSSFRPSYNMVLN- 422

                         650       660       670
                  ....*....|....*....|....*....|...
gi 767933042  744 mLLASKGddPEDAKAkvlsVLKHSLLSFKRRRA 776
Cdd:COG4581   423 -LLARPG--LERARE----LLEDSFAQFQADRS 448
 
Name Accession Description Interval E-value
DEXHc_DDX60 cd18025
DEXH-box helicase domain of DEAD box protein 60; DEAD box protein 60 (DDX60) is an ...
 129-312 2.53e-103

DEXH-box helicase domain of DEAD box protein 60; DEAD box protein 60 (DDX60) is an IFN-inducible cytoplasmic helicase that plays a role in RIG-I-mediated type I interferon (IFN) nuclease-mediated viral RNA degradation. DDX60 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350783 [Multi-domain]  Cd Length: 192  Bit Score: 322.40  E-value: 2.53e-103
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  129 IPNAWQQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTL-PAGRT 207
Cdd:cd18025     1 NPDAWQRELLDIVDRRESALIVAPTSSGKTFISYYCMEKVLRESDDGVVVYVAPTKALVNQVVAEVYARFSKKYpPSGKS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  208 LCGAFTRDYCHN-VLNCQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIRCPFLVLSAT 286
Cdd:cd18025    81 LWGVFTRDYRHNnPMNCQVLITVPECLEILLLSPHNASWVPRIKYVIFDEIHSIGQSEDGAVWEQLLLLIPCPFLALSAT 160

                         170       180
                  ....*....|....*....|....*.
gi 767933042  287 INNPNLLTKWLQSVKQYWKQADKIME 312
Cdd:cd18025   161 IGNPQKFHEWLQSVQRARKAELKKIE 186
SF2_C_Ski2 cd18795
C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an ...
 617-711 3.83e-34

C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. This family includes spliceosomal Brr2 RNA helicase, ASCC3 (involved in the repair of N-alkylated nucleotides), Mtr4 (involved in processing of structured RNAs), DDX60 (involved in viral RNA degradation), and other proteins. Ski2-like RNA helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350182 [Multi-domain]  Cd Length: 154  Bit Score: 128.44  E-value: 3.83e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  617 FTRHGKELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFAQDSVY-------LDALN 689
Cdd:cd18795    51 SSRKECEKTAKDLAGIAFHHAGLTREDRELVEELFREGLIKVLVATSTLAAGVNLPARTVIIKGTQRYdgkgyreLSPLE 130

                          90       100
                  ....*....|....*....|..
gi 767933042  690 YRQMSGRAGRRGQDLLGNVYFF 711
Cdd:cd18795   131 YLQMIGRAGRPGFDTRGEAIIM 152
Dob10 COG4581
Superfamily II RNA helicase [Replication, recombination and repair];
134-776 7.27e-31

Superfamily II RNA helicase [Replication, recombination and repair];


Pssm-ID: 443638 [Multi-domain]  Cd Length: 751  Bit Score: 130.83  E-value: 7.27e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  134 QQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESdvGVVVYVAPAKSLVGQvaatvenRFtktlpagRTLCGAFT 213
Cdd:COG4581    30 QEEAILALEAGRSVLVAAPTGSGKTLVAEFAIFLALARG--RRSFYTAPIKALSNQ-------KF-------FDLVERFG 93

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  214 RDychNV--------LNCQVLITVpeC-FEIL---LLAPHRQkwVERIRYVIFDEVHYLG-REVGAkFWELllVIIRCP- 279
Cdd:COG4581    94 AE---NVglltgdasVNPDAPIVV--MtTEILrnmLYREGAD--LEDVGVVVMDEFHYLAdPDRGW-VWEE--PIIHLPa 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  280 ---FLVLSATINNPNLLTKWLQSVKQywkqadkimeekcisekqadkclnflqdhsyknqsyEVRLVLCGERYNDLEKHI 356
Cdd:COG4581   164 rvqLVLLSATVGNAEEFAEWLTRVRG------------------------------------ETAVVVSEERPVPLEFHY 207

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  357 CsvkhddvyfdhfhpcaaLTTDIIEKYGFPPDLTLTPQesiqlydtmaqVWETwpraqelcpeefilfknkivikkldar 436
Cdd:COG4581   208 L-----------------VTPRLFPLFRVNPELLRPPS-----------RHEV--------------------------- 232

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  437 kyeenlkaeltnwikngqvkkvkrvlknlspdslssskdmvkmfpllVEKLRQMDKLPAIFFLFKnddvgkRAGsvctfl 516
Cdd:COG4581   233 -----------------------------------------------IEELDRGGLLPAIVFIFS------RRG------ 253

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  517 ektetkshphteCHSYVFAIdevlekvrkTQKRISTKKnpkkaeklERKKVYRAeyinflenlkILEISEDCTyadvkal 596
Cdd:COG4581   254 ------------CDEAAQQL---------LSARLTTKE--------ERAEIREA----------IDEFAEDFS------- 287

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  597 hteitrnkdstlervlprvrfTRHGKELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSV 676
Cdd:COG4581   288 ---------------------VLFGKTLSRLLRRGIAVHHAGMLPKYRRLVEELFQAGLLKVVFATDTLAVGINMPARTV 346

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  677 VFAQDS-------VYLDALNYRQMSGRAGRRGQDLLGNVY-----FFDiplPKIKRLLASSVPE-LRGQFPLSITLVLRl 743
Cdd:COG4581   347 VFTKLSkfdgerhRPLTAREFHQIAGRAGRRGIDTEGHVVvlapeHDD---PKKFARLASARPEpLRSSFRPSYNMVLN- 422

                         650       660       670
                  ....*....|....*....|....*....|...
gi 767933042  744 mLLASKGddPEDAKAkvlsVLKHSLLSFKRRRA 776
Cdd:COG4581   423 -LLARPG--LERARE----LLEDSFAQFQADRS 448
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 134-288 8.48e-17

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 78.82  E-value: 8.48e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042   134 QQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGV-VVYVAPAKSLVGQVAATVENRFTKTLPAGRTLCGAF 212
Cdd:pfam00270    4 QAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPqALVLAPTRELAEQIYEELKKLGKGLGLKVASLLGGD 83

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 767933042   213 TRDYCHNVL-NCQVLITVPECFEILLlapHRQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIR--CPFLVLSATIN 288
Cdd:pfam00270   84 SRKEQLEKLkGPDILVGTPGRLLDLL---QERKLLKNLKLLVLDEAHRLLDMGFGPDLEEILRRLPkkRQILLLSATLP 159
DEXDc smart00487
DEAD-like helicases superfamily;
128-297 3.32e-16

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 78.30  E-value: 3.32e-16
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042    128 FIPNAWQQELLD-VVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTLPAGR 206
Cdd:smart00487    7 EPLRPYQKEAIEaLLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGGRVLVLVPTRELAEQWAEELKKLGPSLGLKVV 86

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042    207 TLCGAFTRDYCHNVL---NCQVLITVPECFEILLLapHRQKWVERIRYVIFDEVHYLGrevGAKFWELLLVIIR-----C 278
Cdd:smart00487   87 GLYGGDSKREQLRKLesgKTDILVTTPGRLLDLLE--NDKLSLSNVDLVILDEAHRLL---DGGFGDQLEKLLKllpknV 161

                           170
                    ....*....|....*....
gi 767933042    279 PFLVLSATINNPNLLTKWL 297
Cdd:smart00487  162 QLLLLSATPPEEIENLLEL 180
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
111-286 1.09e-14

Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 78.53  E-value: 1.09e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  111 HYLIRDERKDRDPRVQ-DFIPNAWQQELLD-----VVDKNESAVIVAPTSSGKTYASYYCMEKVLResdVGVVVYVAPAK 184
Cdd:COG1061    61 ELAEAEALEAGDEASGtSFELRPYQQEALEallaaLERGGGRGLVVAPTGTGKTVLALALAAELLR---GKRVLVLVPRR 137

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  185 SLVGQVAATVENRFTKTLPAGrtlcGAFTRDYCHNVLNCQVLITvpecfeilllAPHRQKWVERIRYVIFDEVHYLgrev 264
Cdd:COG1061   138 ELLEQWAEELRRFLGDPLAGG----GKKDSDAPITVATYQSLAR----------RAHLDELGDRFGLVIIDEAHHA---- 199

                         170       180
                  ....*....|....*....|...
gi 767933042  265 GAKFWELLLVIIRCPFLV-LSAT 286
Cdd:COG1061   200 GAPSYRRILEAFPAAYRLgLTAT 222
HELICc smart00490
helicase superfamily c-terminal domain;
625-701 3.46e-11

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 60.30  E-value: 3.46e-11
                            10        20        30        40        50        60        70
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 767933042    625 KALAQRGIGY--HHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFaQDSVYLDALNYRQMSGRAGRRG 701
Cdd:smart00490    5 ELLKELGIKVarLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVI-IYDLPWSPASYIQRIGRAGRAG 82
PRK02362 PRK02362
ATP-dependent DNA helicase;
594-703 4.12e-11

ATP-dependent DNA helicase;


Pssm-ID: 235032 [Multi-domain]  Cd Length: 737  Bit Score: 67.29  E-value: 4.12e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  594 KALHTEITRNKDSTLERVLPRVRFTRHGKELKALA---QRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIH 670
Cdd:PRK02362  265 SALKKTLTAAERAELAELAEEIREVSDTETSKDLAdcvAKGAAFHHAGLSREHRELVEDAFRDRLIKVISSTPTLAAGLN 344

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 767933042  671 MPCKSVV------FAQDS--VYLDALNYRQMSGRAGRRGQD 703
Cdd:PRK02362  345 LPARRVIirdyrrYDGGAgmQPIPVLEYHQMAGRAGRPGLD 385
PRK00254 PRK00254
ski2-like helicase; Provisional
 143-305 3.51e-09

ski2-like helicase; Provisional


Pssm-ID: 234702 [Multi-domain]  Cd Length: 720  Bit Score: 60.99  E-value: 3.51e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  143 KNESAVIVAPTSSGKTYASYYCM-EKVLRESdvGVVVYVAPAKSLVGQ--------------VAATVENRFTKTLPAGRT 207
Cdd:PRK00254   38 EGKNLVLAIPTASGKTLVAEIVMvNKLLREG--GKAVYLVPLKALAEEkyrefkdweklglrVAMTTGDYDSTDEWLGKY 115

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  208 lcgaftrdychnvlncQVLITVPECFEILLlaPHRQKWVERIRYVIFDEVHYLG-REVGAKFwELLL--VIIRCPFLVLS 284
Cdd:PRK00254  116 ----------------DIIIATAEKFDSLL--RHGSSWIKDVKLVVADEIHLIGsYDRGATL-EMILthMLGRAQILGLS 176

                         170       180
                  ....*....|....*....|...
gi 767933042  285 ATINNPNLLTKWLQS--VKQYWK 305
Cdd:PRK00254  177 ATVGNAEELAEWLNAelVVSDWR 199
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 622-701 1.77e-06

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 47.59  E-value: 1.77e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042   622 KELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFAQDSVYlDALNYRQMSGRAGRRG 701
Cdd:pfam00271   31 ELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGLDLPDVDLVINYDLPW-NPASYIQRIGRAGRAG 109
COG1202 COG1202
Superfamily II helicase, archaea-specific [Replication, recombination and repair];
634-709 1.75e-04

Superfamily II helicase, archaea-specific [Replication, recombination and repair];


Pssm-ID: 440815 [Multi-domain]  Cd Length: 790  Bit Score: 45.65  E-value: 1.75e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  634 YHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFaqDSVYL--DALN---YRQMSGRAGRRGQDLLGNV 708
Cdd:COG1202   453 PYHAGLDYGERKKVERRFADQELAAVVTTAALAAGVDFPASQVIF--DSLAMgiEWLSvqeFHQMLGRAGRPDYHDRGKV 530


                  .
gi 767933042  709 Y 709
Cdd:COG1202   531 Y 531
 
Name Accession Description Interval E-value
DEXHc_DDX60 cd18025
DEXH-box helicase domain of DEAD box protein 60; DEAD box protein 60 (DDX60) is an ...
 129-312 2.53e-103

DEXH-box helicase domain of DEAD box protein 60; DEAD box protein 60 (DDX60) is an IFN-inducible cytoplasmic helicase that plays a role in RIG-I-mediated type I interferon (IFN) nuclease-mediated viral RNA degradation. DDX60 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350783 [Multi-domain]  Cd Length: 192  Bit Score: 322.40  E-value: 2.53e-103
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  129 IPNAWQQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTL-PAGRT 207
Cdd:cd18025     1 NPDAWQRELLDIVDRRESALIVAPTSSGKTFISYYCMEKVLRESDDGVVVYVAPTKALVNQVVAEVYARFSKKYpPSGKS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  208 LCGAFTRDYCHN-VLNCQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIRCPFLVLSAT 286
Cdd:cd18025    81 LWGVFTRDYRHNnPMNCQVLITVPECLEILLLSPHNASWVPRIKYVIFDEIHSIGQSEDGAVWEQLLLLIPCPFLALSAT 160

                         170       180
                  ....*....|....*....|....*.
gi 767933042  287 INNPNLLTKWLQSVKQYWKQADKIME 312
Cdd:cd18025   161 IGNPQKFHEWLQSVQRARKAELKKIE 186
DEXHc_Ski2 cd17921
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ...
 131-300 6.72e-41

DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. They belong to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350679 [Multi-domain]  Cd Length: 181  Bit Score: 148.56  E-value: 6.72e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  131 NAWQQELLD-VVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDvGVVVYVAPAKSLVGQVAAtvenRFTKTLPAGRTLC 209
Cdd:cd17921     3 NPIQREALRaLYLSGDSVLVSAPTSSGKTLIAELAILRALATSG-GKAVYIAPTRALVNQKEA----DLRERFGPLGKNV 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  210 GAFTRDYCHN---VLNCQVLITVPECFEILLLAPHrQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIR-----CPFL 281
Cdd:cd17921    78 GLLTGDPSVNkllLAEADILVATPEKLDLLLRNGG-ERLIQDVRLVVVDEAHLIGDGERGVVLELLLSRLLrinknARFV 156

                         170
                  ....*....|....*....
gi 767933042  282 VLSATINNPNLLTKWLQSV 300
Cdd:cd17921   157 GLSATLPNAEDLAEWLGVE 175
SF2_C_Ski2 cd18795
C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an ...
 617-711 3.83e-34

C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. This family includes spliceosomal Brr2 RNA helicase, ASCC3 (involved in the repair of N-alkylated nucleotides), Mtr4 (involved in processing of structured RNAs), DDX60 (involved in viral RNA degradation), and other proteins. Ski2-like RNA helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350182 [Multi-domain]  Cd Length: 154  Bit Score: 128.44  E-value: 3.83e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  617 FTRHGKELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFAQDSVY-------LDALN 689
Cdd:cd18795    51 SSRKECEKTAKDLAGIAFHHAGLTREDRELVEELFREGLIKVLVATSTLAAGVNLPARTVIIKGTQRYdgkgyreLSPLE 130

                          90       100
                  ....*....|....*....|..
gi 767933042  690 YRQMSGRAGRRGQDLLGNVYFF 711
Cdd:cd18795   131 YLQMIGRAGRPGFDTRGEAIIM 152
Dob10 COG4581
Superfamily II RNA helicase [Replication, recombination and repair];
134-776 7.27e-31

Superfamily II RNA helicase [Replication, recombination and repair];


Pssm-ID: 443638 [Multi-domain]  Cd Length: 751  Bit Score: 130.83  E-value: 7.27e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  134 QQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESdvGVVVYVAPAKSLVGQvaatvenRFtktlpagRTLCGAFT 213
Cdd:COG4581    30 QEEAILALEAGRSVLVAAPTGSGKTLVAEFAIFLALARG--RRSFYTAPIKALSNQ-------KF-------FDLVERFG 93

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  214 RDychNV--------LNCQVLITVpeC-FEIL---LLAPHRQkwVERIRYVIFDEVHYLG-REVGAkFWELllVIIRCP- 279
Cdd:COG4581    94 AE---NVglltgdasVNPDAPIVV--MtTEILrnmLYREGAD--LEDVGVVVMDEFHYLAdPDRGW-VWEE--PIIHLPa 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  280 ---FLVLSATINNPNLLTKWLQSVKQywkqadkimeekcisekqadkclnflqdhsyknqsyEVRLVLCGERYNDLEKHI 356
Cdd:COG4581   164 rvqLVLLSATVGNAEEFAEWLTRVRG------------------------------------ETAVVVSEERPVPLEFHY 207

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  357 CsvkhddvyfdhfhpcaaLTTDIIEKYGFPPDLTLTPQesiqlydtmaqVWETwpraqelcpeefilfknkivikkldar 436
Cdd:COG4581   208 L-----------------VTPRLFPLFRVNPELLRPPS-----------RHEV--------------------------- 232

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  437 kyeenlkaeltnwikngqvkkvkrvlknlspdslssskdmvkmfpllVEKLRQMDKLPAIFFLFKnddvgkRAGsvctfl 516
Cdd:COG4581   233 -----------------------------------------------IEELDRGGLLPAIVFIFS------RRG------ 253

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  517 ektetkshphteCHSYVFAIdevlekvrkTQKRISTKKnpkkaeklERKKVYRAeyinflenlkILEISEDCTyadvkal 596
Cdd:COG4581   254 ------------CDEAAQQL---------LSARLTTKE--------ERAEIREA----------IDEFAEDFS------- 287

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  597 hteitrnkdstlervlprvrfTRHGKELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSV 676
Cdd:COG4581   288 ---------------------VLFGKTLSRLLRRGIAVHHAGMLPKYRRLVEELFQAGLLKVVFATDTLAVGINMPARTV 346

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  677 VFAQDS-------VYLDALNYRQMSGRAGRRGQDLLGNVY-----FFDiplPKIKRLLASSVPE-LRGQFPLSITLVLRl 743
Cdd:COG4581   347 VFTKLSkfdgerhRPLTAREFHQIAGRAGRRGIDTEGHVVvlapeHDD---PKKFARLASARPEpLRSSFRPSYNMVLN- 422

                         650       660       670
                  ....*....|....*....|....*....|...
gi 767933042  744 mLLASKGddPEDAKAkvlsVLKHSLLSFKRRRA 776
Cdd:COG4581   423 -LLARPG--LERARE----LLEDSFAQFQADRS 448
BRR2 COG1204
Replicative superfamily II helicase [Replication, recombination and repair];
134-802 8.03e-26

Replicative superfamily II helicase [Replication, recombination and repair];


Pssm-ID: 440817 [Multi-domain]  Cd Length: 529  Bit Score: 113.07  E-value: 8.03e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  134 QQELLD-VVDKNESAVIVAPTSSGKTYASYYCMEKVLRESdvGVVVYVAPAKSLVGQVaatvENRFTKTLPAGRTLCGAF 212
Cdd:COG1204    27 QAEALEaGLLEGKNLVVSAPTASGKTLIAELAILKALLNG--GKALYIVPLRALASEK----YREFKRDFEELGIKVGVS 100

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  213 TRDYCHN---VLNCQVLITVPECFEILLLapHRQKWVERIRYVIFDEVHYLG-REVGAKFwELLLVIIR--CP---FLVL 283
Cdd:COG1204   101 TGDYDSDdewLGRYDILVATPEKLDSLLR--NGPSWLRDVDLVVVDEAHLIDdESRGPTL-EVLLARLRrlNPeaqIVAL 177

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  284 SATINNPNLLTKWLqsvkqywkqadkimeekcisekqadkclnflqdhsyknqsyEVRLVLCGERYNDLEKHIcsVKHDD 363
Cdd:COG1204   178 SATIGNAEEIAEWL-----------------------------------------DAELVKSDWRPVPLNEGV--LYDGV 214

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  364 VYFDhfhpcaalttdiiekygfppDLTLTPQESIQlydtmaqvwetwpraqelcpeefilfknKIVIKKLDarkyeenlk 443
Cdd:COG1204   215 LRFD--------------------DGSRRSKDPTL----------------------------ALALDLLE--------- 237

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  444 aeltnwiKNGQVkkvkrvlknlspdslssskdmvkmfpllveklrqmdklpAIFflfknddvgkragsvctflektetks 523
Cdd:COG1204   238 -------EGGQV---------------------------------------LVF-------------------------- 245

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  524 hphtechsyvfaidevlekvrktqkrISTKKNpkkAEKLerkkvyrAEYI-NFLENLKILEISEDctyadVKALHTEITR 602
Cdd:COG1204   246 --------------------------VSSRRD---AESL-------AKKLaDELKRRLTPEEREE-----LEELAEELLE 284

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  603 NKDSTLErvlprvrftrhGKELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFA--- 679
Cdd:COG1204   285 VSEETHT-----------NEKLADCLEKGVAFHHAGLPSELRRLVEDAFREGLIKVLVATPTLAAGVNLPARRVIIRdtk 353

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  680 -QDSVYLDALNYRQMSGRAGRRGQDLLGNVYFFDIPLPK----IKRLLASSVPELRGQfpLSITLVLRLMLLASKGDDPE 754
Cdd:COG1204   354 rGGMVPIPVLEFKQMAGRAGRPGYDPYGEAILVAKSSDEadelFERYILGEPEPIRSK--LANESALRTHLLALIASGFA 431

                         650       660       670       680
                  ....*....|....*....|....*....|....*....|....*...
gi 767933042  755 DAKAKVLSVLKHSLLSFkrRRAMETLKLYFLFSLQLLIKEDYLNKKGN 802
Cdd:COG1204   432 NSREELLDFLENTFYAY--QYDKGDLEEVVDDALEFLLENGFIEEDGD 477
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 134-288 8.48e-17

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 78.82  E-value: 8.48e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042   134 QQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGV-VVYVAPAKSLVGQVAATVENRFTKTLPAGRTLCGAF 212
Cdd:pfam00270    4 QAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPqALVLAPTRELAEQIYEELKKLGKGLGLKVASLLGGD 83

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 767933042   213 TRDYCHNVL-NCQVLITVPECFEILLlapHRQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIR--CPFLVLSATIN 288
Cdd:pfam00270   84 SRKEQLEKLkGPDILVGTPGRLLDLL---QERKLLKNLKLLVLDEAHRLLDMGFGPDLEEILRRLPkkRQILLLSATLP 159
DEXDc smart00487
DEAD-like helicases superfamily;
128-297 3.32e-16

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 78.30  E-value: 3.32e-16
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042    128 FIPNAWQQELLD-VVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTLPAGR 206
Cdd:smart00487    7 EPLRPYQKEAIEaLLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGGRVLVLVPTRELAEQWAEELKKLGPSLGLKVV 86

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042    207 TLCGAFTRDYCHNVL---NCQVLITVPECFEILLLapHRQKWVERIRYVIFDEVHYLGrevGAKFWELLLVIIR-----C 278
Cdd:smart00487   87 GLYGGDSKREQLRKLesgKTDILVTTPGRLLDLLE--NDKLSLSNVDLVILDEAHRLL---DGGFGDQLEKLLKllpknV 161

                           170
                    ....*....|....*....
gi 767933042    279 PFLVLSATINNPNLLTKWL 297
Cdd:smart00487  162 QLLLLSATPPEEIENLLEL 180
DEXHc_LHR-like cd17922
DEXH-box helicase domain of LHR; Large helicase-related protein (LHR) is a DNA ...
 144-297 6.46e-16

DEXH-box helicase domain of LHR; Large helicase-related protein (LHR) is a DNA damage-inducible helicase that uses ATP hydrolysis to drive unidirectional 3'-to-5' translocation along single-stranded DNA (ssDNA) and to unwind RNA:DNA duplexes. This group also includes related bacterial and archaeal helicases from the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350680 [Multi-domain]  Cd Length: 166  Bit Score: 76.47  E-value: 6.46e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  144 NESAVIVAPTSSGKTYASYYC-MEKVLRESDVGV-VVYVAPAKSLV------------------------GQVAATVENR 197
Cdd:cd17922     1 GRNVLIAAPTGSGKTEAAFLPaLSSLADEPEKGVqVLYISPLKALIndqerrleepldeidleipvavrhGDTSQSEKAK 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  198 FTKTLPagrtlcgaftrdychnvlncQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVH-YLGREVGAKFwELLLV-- 274
Cdd:cd17922    81 QLKNPP--------------------GILITTPESLELLLVNKKLRELFAGLRYVVVDEIHaLLGSKRGVQL-ELLLErl 139

                         170       180
                  ....*....|....*....|....*..
gi 767933042  275 --IIRCPFLV--LSATINNPNLLTKWL 297
Cdd:cd17922   140 rkLTGRPLRRigLSATLGNLEEAAAFL 166
DEXHc_HFM1 cd18023
DEXH-box helicase domain of ATP-dependent DNA helicase HFM1; HFM1 is a type II DEAD box ...
 131-298 4.76e-15

DEXH-box helicase domain of ATP-dependent DNA helicase HFM1; HFM1 is a type II DEAD box helicase, required for crossover formation and complete synapsis of homologous chromosomes during meiosis. HFM1 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350781 [Multi-domain]  Cd Length: 206  Bit Score: 75.09  E-value: 4.76e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  131 NAWQQELL-DVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVG-----VVVYVAPAKSLVGQVAATVENRFTktlPA 204
Cdd:cd18023     3 NRIQSEVFpDLLYSDKNFVVSAPTGSGKTVLFELAILRLLKERNPLpwgnrKVVYIAPIKALCSEKYDDWKEKFG---PL 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  205 GRTlCGAFTRDY----CHNVLNCQVLITVPECFE-ILLLAPHRQKWVERIRYVIFDEVHYLGREVGA------------- 266
Cdd:cd18023    80 GLS-CAELTGDTemddTFEIQDADIILTTPEKWDsMTRRWRDNGNLVQLVALVLIDEVHIIKENRGAtlevvvsrmktls 158

                         170       180       190
                  ....*....|....*....|....*....|...
gi 767933042  267 KFWELL-LVIIRCPFLVLSATINNPNLLTKWLQ 298
Cdd:cd18023   159 SSSELRgSTVRPMRFVAVSATIPNIEDLAEWLG 191
DEXHc_ASCC3_2 cd18022
C-terminal DEXH-box helicase domain of Activating signal cointegrator 1 complex subunit 3; ...
 144-297 8.72e-15

C-terminal DEXH-box helicase domain of Activating signal cointegrator 1 complex subunit 3; Activating signal cointegrator 1 complex subunit 3 (ASCC3) is a type II DEAD box helicase that plays a role in the repair of N-alkylated nucleotides. ASCC3 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350780 [Multi-domain]  Cd Length: 189  Bit Score: 73.95  E-value: 8.72e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  144 NESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTLpaGRT---LCGAFTRDyCHNV 220
Cdd:cd18022    17 DNNVLLGAPTGSGKTIAAELAMFRAFNKYPGSKVVYIAPLKALVRERVDDWKKRFEEKL--GKKvveLTGDVTPD-MKAL 93

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  221 LNCQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLGREVGAkfweLLLVII-RCPFLV-----------LSATIN 288
Cdd:cd18022    94 ADADIIITTPEKWDGISRSWQTREYVQQVSLIIIDEIHLLGSDRGP----VLEVIVsRMNYISsqtekpvrlvgLSTALA 169


                  ....*....
gi 767933042  289 NPNLLTKWL 297
Cdd:cd18022   170 NAGDLANWL 178
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
111-286 1.09e-14

Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 78.53  E-value: 1.09e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  111 HYLIRDERKDRDPRVQ-DFIPNAWQQELLD-----VVDKNESAVIVAPTSSGKTYASYYCMEKVLResdVGVVVYVAPAK 184
Cdd:COG1061    61 ELAEAEALEAGDEASGtSFELRPYQQEALEallaaLERGGGRGLVVAPTGTGKTVLALALAAELLR---GKRVLVLVPRR 137

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  185 SLVGQVAATVENRFTKTLPAGrtlcGAFTRDYCHNVLNCQVLITvpecfeilllAPHRQKWVERIRYVIFDEVHYLgrev 264
Cdd:COG1061   138 ELLEQWAEELRRFLGDPLAGG----GKKDSDAPITVATYQSLAR----------RAHLDELGDRFGLVIIDEAHHA---- 199

                         170       180
                  ....*....|....*....|...
gi 767933042  265 GAKFWELLLVIIRCPFLV-LSAT 286
Cdd:COG1061   200 GAPSYRRILEAFPAAYRLgLTAT 222
DEXHc_Mtr4-like cd18024
DEXH-box helicase domain of ATP-dependent RNA helicase Mtr4; Mtr4 (also known as DOB1 or ...
 128-302 4.31e-13

DEXH-box helicase domain of ATP-dependent RNA helicase Mtr4; Mtr4 (also known as DOB1 or SKIV2L2) is a type II DEAD box helicase that plays a role in the processing of structured RNAs, including the maturation of 5.8S ribosomal RNA (rRNA)and is part of the TRAMP complex that is involved in exosome-mediated degradation of aberrant RNAs. Mtr4 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350782 [Multi-domain]  Cd Length: 205  Bit Score: 69.39  E-value: 4.31e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  128 FIPNAWQQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDvgVVVYVAPAKSLVGQVAATVENRFTKTlpagrt 207
Cdd:cd18024    31 FTLDPFQKTAIACIERNESVLVSAHTSAGKTVVAEYAIAQSLRDKQ--RVIYTSPIKALSNQKYRELQEEFGDV------ 102

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  208 lcGAFTRDYCHN-VLNCQVLITvpecfEILLLAPHRQKWVER-IRYVIFDEVHYL-GREVGAkFWE--LLLVIIRCPFLV 282
Cdd:cd18024   103 --GLMTGDVTINpNASCLVMTT-----EILRSMLYRGSEIMReVAWVIFDEIHYMrDKERGV-VWEetIILLPDKVRYVF 174

                         170       180
                  ....*....|....*....|
gi 767933042  283 LSATINNPNLLTKWLQSVKQ 302
Cdd:cd18024   175 LSATIPNARQFAEWICKIHK 194
ResIII pfam04851
Type III restriction enzyme, res subunit;
127-288 5.39e-12

Type III restriction enzyme, res subunit;


Pssm-ID: 398492 [Multi-domain]  Cd Length: 162  Bit Score: 65.00  E-value: 5.39e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042   127 DFIPNAWQQELLD-----VVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQvaatVENRFTKT 201
Cdd:pfam04851    1 KLELRPYQIEAIEnllesIKNGQKRGLIVMATGSGKTLTAAKLIARLFKKGPIKKVLFLVPRKDLLEQ----ALEEFKKF 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042   202 LPAGRTLCGAFT-RDYCHNVLNCQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLgrevGAKFWELLLVIIRCPF 280
Cdd:pfam04851   77 LPNYVEIGEIISgDKKDESVDDNKIVVTTIQSLYKALELASLELLPDFFDVIIIDEAHRS----GASSYRNILEYFKPAF 152


                   ....*....
gi 767933042   281 LV-LSATIN 288
Cdd:pfam04851  153 LLgLTATPE 161
DEXHc_archSki2 cd18028
DEXH-box helicase domain of archaeal Ski2-type helicase; Archaeal Ski2-type RNA helicases play ...
 134-297 6.84e-12

DEXH-box helicase domain of archaeal Ski2-type helicase; Archaeal Ski2-type RNA helicases play an important role in RNA degradation, processing and splicing pathways. They belong to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350786 [Multi-domain]  Cd Length: 177  Bit Score: 65.05  E-value: 6.84e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  134 QQELLD-VVDKNESAVIVAPTSSGKTYASYYCMEKVLRESdvGVVVYVAPAKSLVGQVAatveNRFTKTLPAGRTlCGAF 212
Cdd:cd18028     6 QAEAVRaGLLKGENLLISIPTASGKTLIAEMAMVNTLLEG--GKALYLVPLRALASEKY----EEFKKLEEIGLK-VGIS 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  213 TRDY---CHNVLNCQVLITVPECFEILLlaPHRQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIR-----CPFLVLS 284
Cdd:cd18028    79 TGDYdedDEWLGDYDIIVATYEKFDSLL--RHSPSWLRDVGVVVVDEIHLISDEERGPTLESIVARLRrlnpnTQIIGLS 156

                         170
                  ....*....|...
gi 767933042  285 ATINNPNLLTKWL 297
Cdd:cd18028   157 ATIGNPDELAEWL 169
HELICc smart00490
helicase superfamily c-terminal domain;
625-701 3.46e-11

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 60.30  E-value: 3.46e-11
                            10        20        30        40        50        60        70
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 767933042    625 KALAQRGIGY--HHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFaQDSVYLDALNYRQMSGRAGRRG 701
Cdd:smart00490    5 ELLKELGIKVarLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVI-IYDLPWSPASYIQRIGRAGRAG 82
PRK02362 PRK02362
ATP-dependent DNA helicase;
594-703 4.12e-11

ATP-dependent DNA helicase;


Pssm-ID: 235032 [Multi-domain]  Cd Length: 737  Bit Score: 67.29  E-value: 4.12e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  594 KALHTEITRNKDSTLERVLPRVRFTRHGKELKALA---QRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIH 670
Cdd:PRK02362  265 SALKKTLTAAERAELAELAEEIREVSDTETSKDLAdcvAKGAAFHHAGLSREHRELVEDAFRDRLIKVISSTPTLAAGLN 344

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 767933042  671 MPCKSVV------FAQDS--VYLDALNYRQMSGRAGRRGQD 703
Cdd:PRK02362  345 LPARRVIirdyrrYDGGAgmQPIPVLEYHQMAGRAGRPGLD 385
DEXHc_SKIV2L cd18027
DEXH-box helicase domain of SKIV2L; Superkiller viralicidic activity 2-like (SKIV2L, also ...
 128-302 1.08e-10

DEXH-box helicase domain of SKIV2L; Superkiller viralicidic activity 2-like (SKIV2L, also called SKI2 or DHX13) plays a role in a number of cellular processes involving alteration of RNA secondary structure such as translation initiation, nuclear and mitochondrial splicing, and ribosome and spliceosome assembly. SKIV2L belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350785 [Multi-domain]  Cd Length: 179  Bit Score: 61.90  E-value: 1.08e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  128 FIPNAWQQELLDVVDKNESAVIVAPTSSGKTYASYYCMekVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTlpagrt 207
Cdd:cd18027     7 FELDVFQKQAILHLEAGDSVFVAAHTSAGKTVVAEYAI--ALAQKHMTRTIYTSPIKALSNQKFRDFKNTFGDV------ 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  208 lcGAFTRDY-CHNVLNCQVLITvpecfEILLLAPHRQKWVER-IRYVIFDEVHYLGREVGAKFWELLLVII--RCPFLVL 283
Cdd:cd18027    79 --GLITGDVqLNPEASCLIMTT-----EILRSMLYNGSDVIRdLEWVIFDEVHYINDAERGVVWEEVLIMLpdHVSIILL 151

                         170
                  ....*....|....*....
gi 767933042  284 SATINNPNLLTKWLQSVKQ 302
Cdd:cd18027   152 SATVPNTVEFADWIGRIKK 170
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 144-286 5.05e-10

N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily 2 helicases comprise a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This N-terminal domain contains the ATP-binding region.


Pssm-ID: 350668 [Multi-domain]  Cd Length: 146  Bit Score: 58.95  E-value: 5.05e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  144 NESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVvYVAPAKSLVGQVAATVENRFTKTLPagrtlCGAFTRDY--CHNVL 221
Cdd:cd00046     1 GENVLITAPTGSGKTLAALLAALLLLLKKGKKVL-VLVPTKALALQTAERLRELFGPGIR-----VAVLVGGSsaEEREK 74

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 767933042  222 NC----QVLITVPECFEILLLaPHRQKWVERIRYVIFDEVH-YLGREVGAkfWELLLVIIR-----CPFLVLSAT 286
Cdd:cd00046    75 NKlgdaDIIIATPDMLLNLLL-REDRLFLKDLKLIIVDEAHaLLIDSRGA--LILDLAVRKaglknAQVILLSAT 146
PRK01172 PRK01172
ATP-dependent DNA helicase;
624-706 1.06e-09

ATP-dependent DNA helicase;


Pssm-ID: 100801 [Multi-domain]  Cd Length: 674  Bit Score: 62.59  E-value: 1.06e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  624 LKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVV------FAQD-SVYLDALNYRQMSGR 696
Cdd:PRK01172  280 LNEMLPHGVAFHHAGLSNEQRRFIEEMFRNRYIKVIVATPTLAAGVNLPARLVIvrditrYGNGgIRYLSNMEIKQMIGR 359

                          90
                  ....*....|
gi 767933042  697 AGRRGQDLLG 706
Cdd:PRK01172  360 AGRPGYDQYG 369
PRK00254 PRK00254
ski2-like helicase; Provisional
 143-305 3.51e-09

ski2-like helicase; Provisional


Pssm-ID: 234702 [Multi-domain]  Cd Length: 720  Bit Score: 60.99  E-value: 3.51e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  143 KNESAVIVAPTSSGKTYASYYCM-EKVLRESdvGVVVYVAPAKSLVGQ--------------VAATVENRFTKTLPAGRT 207
Cdd:PRK00254   38 EGKNLVLAIPTASGKTLVAEIVMvNKLLREG--GKAVYLVPLKALAEEkyrefkdweklglrVAMTTGDYDSTDEWLGKY 115

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  208 lcgaftrdychnvlncQVLITVPECFEILLlaPHRQKWVERIRYVIFDEVHYLG-REVGAKFwELLL--VIIRCPFLVLS 284
Cdd:PRK00254  116 ----------------DIIIATAEKFDSLL--RHGSSWIKDVKLVVADEIHLIGsYDRGATL-EMILthMLGRAQILGLS 176

                         170       180
                  ....*....|....*....|...
gi 767933042  285 ATINNPNLLTKWLQS--VKQYWK 305
Cdd:PRK00254  177 ATVGNAEELAEWLNAelVVSDWR 199
PRK00254 PRK00254
ski2-like helicase; Provisional
 622-706 4.98e-09

ski2-like helicase; Provisional


Pssm-ID: 234702 [Multi-domain]  Cd Length: 720  Bit Score: 60.60  E-value: 4.98e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  622 KELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFAQDSVYLD-------ALNYRQMS 694
Cdd:PRK00254  288 EKLKKALRGGVAFHHAGLGRTERVLIEDAFREGLIKVITATPTLSAGINLPAFRVIIRDTKRYSNfgwedipVLEIQQMM 367

                          90
                  ....*....|..
gi 767933042  695 GRAGRRGQDLLG 706
Cdd:PRK00254  368 GRAGRPKYDEVG 379
DEXHc_RE cd17926
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family ...
 133-286 5.45e-09

DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family is composed of helicase restriction enzymes and similar proteins such as TFIIH basal transcription factor complex helicase XPB subunit. These proteins are part of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350684 [Multi-domain]  Cd Length: 146  Bit Score: 55.77  E-value: 5.45e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  133 WQQELLDVVDKNES---AVIVAPTSSGKTYASYYCMEKVLRESdvgvVVYVAPAKSLVGQVAAtvenRFTKTLPaGRTLc 209
Cdd:cd17926     4 YQEEALEAWLAHKNnrrGILVLPTGSGKTLTALALIAYLKELR----TLIVVPTDALLDQWKE----RFEDFLG-DSSI- 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  210 GAFTRDYCHNVLNCQVLITVPECFEILL---LAPHRQKWverirYVIFDEVHYLgrevGAKFWELLLVIIRCPFLV-LSA 285
Cdd:cd17926    74 GLIGGGKKKDFDDANVVVATYQSLSNLAeeeKDLFDQFG-----LLIVDEAHHL----PAKTFSEILKELNAKYRLgLTA 144


                  .
gi 767933042  286 T 286
Cdd:cd17926   145 T 145
DEXHc_Brr2_1 cd18019
N-terminal DEXH-box helicase domain of spliceosomal Brr2 RNA helicase; Brr2 is a type II DEAD ...
 142-289 4.87e-08

N-terminal DEXH-box helicase domain of spliceosomal Brr2 RNA helicase; Brr2 is a type II DEAD box helicase that mediates spliceosome catalytic activation. It is a stable subunit of the spliceosome, required during splicing catalysis and spliceosome disassembly. Brr2 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350777 [Multi-domain]  Cd Length: 214  Bit Score: 54.68  E-value: 4.87e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  142 DKNESAVIVAPTSSGKTYASYYCMEKVL---RESDVGV------VVYVAPAKSLVGQVAATVENRFTktlPAG---RTLC 209
Cdd:cd18019    31 ETDENLLLCAPTGAGKTNVALLTILREIgkhRNPDGTInldafkIVYIAPMKALVQEMVGNFSKRLA---PYGitvAELT 107

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  210 G--AFTRDYCHNVlncQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIR--------CP 279
Cdd:cd18019   108 GdqQLTKEQISET---QIIVTTPEKWDIITRKSGDRTYTQLVRLIIIDEIHLLHDDRGPVLESIVARTIRqieqtqeyVR 184

                         170
                  ....*....|
gi 767933042  280 FLVLSATINN 289
Cdd:cd18019   185 LVGLSATLPN 194
Lhr COG1201
Lhr-like helicase [Replication, recombination and repair];
130-297 9.33e-08

Lhr-like helicase [Replication, recombination and repair];


Pssm-ID: 440814 [Multi-domain]  Cd Length: 850  Bit Score: 56.26  E-value: 9.33e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  130 PNAWQQELLDVVDKNESAVIVAPTSSGKTYASYY-CMEKVLRESDVGV------VVYVAPAKSL--------------VG 188
Cdd:COG1201    25 PTPPQREAWPAIAAGESTLLIAPTGSGKTLAAFLpALDELARRPRPGElpdglrVLYISPLKALandiernlrapleeIG 104

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  189 QVAA------TVENRFTKTLPAGRTlcgAFTRDYCHnvlncqVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLgr 262
Cdd:COG1201   105 EAAGlplpeiRVGVRTGDTPASERQ---RQRRRPPH------ILITTPESLALLLTSPDARELLRGVRTVIVDEIHAL-- 173

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 767933042  263 eVGAK---FWELLL----VIIRCPFLV--LSATINNPNLLTKWL 297
Cdd:COG1201   174 -AGSKrgvHLALSLerlrALAPRPLQRigLSATVGPLEEVARFL 216
DEXHc_Brr2_2 cd18021
C-terminal D[D/E]X[H/Q]-box helicase domain of spliceosomal Brr2 RNA helicase; Brr2 is a type ...
 131-266 9.85e-08

C-terminal D[D/E]X[H/Q]-box helicase domain of spliceosomal Brr2 RNA helicase; Brr2 is a type II DEAD box helicase that mediates spliceosome catalytic activation. It is a stable subunit of the spliceosome, required during splicing catalysis and spliceosome disassembly. Brr2 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350779 [Multi-domain]  Cd Length: 191  Bit Score: 53.42  E-value: 9.85e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  131 NAWQQELLDVV-DKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTLpaGRT-- 207
Cdd:cd18021     5 NPIQTQVFNSLyNTDDNVFVGAPTGSGKTVCAELALLRHWRQNPKGRAVYIAPMQELVDARYKDWRAKFGPLL--GKKvv 82

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  208 -LCGAFTRDYCHnVLNCQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLGREVGA 266
Cdd:cd18021    83 kLTGETSTDLKL-LAKSDVILATPEQWDVLSRRWKQRKNVQSVELFIADELHLIGGENGP 141
DEXHc_Hrq1-like cd17923
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a ...
 145-290 1.71e-07

DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a role in DNA inter-strand crosslink (ICL) repair and in telomere maintenance. Hrq1 lacks the Sld2-like domain found in RecQ4. Hrq1 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350681 [Multi-domain]  Cd Length: 182  Bit Score: 52.59  E-value: 1.71e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  145 ESAVIVAPTSSGKTYAsyY---CMEKVLRESDVgVVVYVAPAKSLvgqvAATVENRFTKTLPA--GRTLCGAFTRDYCHN 219
Cdd:cd17923    16 RSVVVTTGTASGKSLC--YqlpILEALLRDPGS-RALYLYPTKAL----AQDQLRSLRELLEQlgLGIRVATYDGDTPRE 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  220 V------LNCQVLITVPECFEILLLAPHRQ--KWVERIRYVIFDEVHY----LGREVGAKFWELL---------LVIIRC 278
Cdd:cd17923    89 ErraiirNPPRILLTNPDMLHYALLPHHDRwaRFLRNLRYVVLDEAHTyrgvFGSHVALLLRRLRrlcrrygadPQFILT 168

                         170
                  ....*....|..
gi 767933042  279 pflvlSATINNP 290
Cdd:cd17923   169 -----SATIGNP 175
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 622-701 1.77e-06

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 47.59  E-value: 1.77e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042   622 KELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFAQDSVYlDALNYRQMSGRAGRRG 701
Cdd:pfam00271   31 ELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGLDLPDVDLVINYDLPW-NPASYIQRIGRAGRAG 109
DEXHc_RLR cd18036
DEXH-box helicase domain of RIG-I-like receptors; RIG-I-like receptors (RLRs) sense ...
 128-263 2.68e-06

DEXH-box helicase domain of RIG-I-like receptors; RIG-I-like receptors (RLRs) sense cytoplasmic viral RNA and comprise RIG-I, RLR-2/MDA5 (melanoma differentiation-associated protein 5) and RLR-3/LGP2 (laboratory of genetics and physiology 2). RIG-I-like receptors (RLRs) are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350794 [Multi-domain]  Cd Length: 204  Bit Score: 49.40  E-value: 2.68e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  128 FIPNAWQQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRE----SDVGVVVYVAPAKSLVGQvAATVENRFTKTLP 203
Cdd:cd18036     1 LELRNYQLELVLPALRGKNTIICAPTGSGKTRVAVYICRHHLEKrrsaGEKGRVVVLVNKVPLVEQ-QLEKFFKYFRKGY 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 767933042  204 AGRTLCGAfTRDYC---HNVLNCQVLITVPECFEILLLAPHRQKWVERIRY--VIFDEVHYLGRE 263
Cdd:cd18036    80 KVTGLSGD-SSHKVsfgQIVKASDVIICTPQILINNLLSGREEERVYLSDFslLIFDECHHTQKE 143
SF2_C_LHR cd18796
C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a ...
 593-702 1.13e-05

C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a DNA damage-inducible helicase that uses ATP hydrolysis to drive unidirectional 3'-to-5' translocation along single-stranded DNA (ssDNA) and to unwind RNA:DNA duplexes. This group also includes related bacterial and archaeal helicases. LHR family helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350183 [Multi-domain]  Cd Length: 150  Bit Score: 46.49  E-value: 1.13e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  593 VKALHTEITRNKdSTL---------ERVLPRVRFtRHGKELKALAqrgIGYHHSSMYFKEKEFVEILFVKGLIRVVTATE 663
Cdd:cd18796    28 YAEVIFLLERHK-STLvftntrsqaERLAQRLRE-LCPDRVPPDF---IALHHGSLSRELREEVEAALKRGDLKVVVATS 102

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 767933042  664 TLALGIHM-PCKSVVfaQDSVYLDALNYRQMSGRAGRRGQ 702
Cdd:cd18796   103 SLELGIDIgDVDLVI--QIGSPKSVARLLQRLGRSGHRPG 140
DEXHc_RIG-I cd17927
DEXH-box helicase domain of DEAD-like helicase RIG-I family proteins; Members of the RIG-I ...
 130-258 1.86e-05

DEXH-box helicase domain of DEAD-like helicase RIG-I family proteins; Members of the RIG-I family include FANCM, dicer, Hef, and the RIG-I-like receptors. Fanconi anemia group M (FANCM) protein is a DNA-dependent ATPase component of the Fanconi anemia (FA) core complex required for the normal activation of the FA pathway, leading to monoubiquitination of the FANCI-FANCD2 complex in response to DNA damage, cellular resistance to DNA cross-linking drugs, and prevention of chromosomal breakage. Dicer ribonucleases cleave double-stranded RNA (dsRNA) precursors to generate microRNAs (miRNAs) and small interfering RNAs (siRNAs). Hef (helicase-associated endonuclease fork-structure) is involved in stalled replication fork repair. RIG-I-like receptors (RLRs) sense cytoplasmic viral RNA and comprises RIG-I, RLR-2/MDA5 (melanoma differentiation-associated protein 5) and RLR-3/LGP2 (laboratory of genetics and physiology 2). The RIG-I family is part of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350685 [Multi-domain]  Cd Length: 201  Bit Score: 46.66  E-value: 1.86e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  130 PNAWQQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVL---RESDVGVVVYVAPAKSLVGQVAATVENRFTKtlPAGR 206
Cdd:cd17927     3 PRNYQLELAQPALKGKNTIICLPTGSGKTFVAVLICEHHLkkfPAGRKGKVVFLANKVPLVEQQKEVFRKHFER--PGYK 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 767933042  207 TlcGAFTRDYCHNVLN------CQVLITVPECFEILLLAPhRQKWVERIRYVIFDEVH 258
Cdd:cd17927    81 V--TGLSGDTSENVSVeqivesSDVIIVTPQILVNDLKSG-TIVSLSDFSLLVFDECH 135
Cas3 COG1203
CRISPR-Cas type I system-associated endonuclease/helicase Cas3 [Defense mechanisms]; ...
 131-286 6.06e-05

CRISPR-Cas type I system-associated endonuclease/helicase Cas3 [Defense mechanisms]; CRISPR-Cas type I system-associated endonuclease/helicase Cas3 is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 440816 [Multi-domain]  Cd Length: 535  Bit Score: 47.00  E-value: 6.06e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  131 NAWQQELLDVVDKNESA-----VIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFT------ 199
Cdd:COG1203   129 NPLQNEALELALEAAEEepglfILTAPTGGGKTEAALLFALRLAAKHGGRRIIYALPFTSIINQTYDRLRDLFGedvllh 208

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  200 --KTLPAGRTLCGAFTRDYCHNVLNCQVL---ITVpeC-----FEILLLA-PHRQKWVERIRY--VIFDEVHYLgrevGA 266
Cdd:COG1203   209 hsLADLDLLEEEEEYESEARWLKLLKELWdapVVV--TtidqlFESLFSNrKGQERRLHNLANsvIILDEVQAY----PP 282

                         170       180
                  ....*....|....*....|....*.
gi 767933042  267 KFWELLLVIIR------CPFLVLSAT 286
Cdd:COG1203   283 YMLALLLRLLEwlknlgGSVILMTAT 308
DEXHc_Hef cd18035
DEXH-box helicase domain of Hef; Hef (helicase-associated endonuclease fork-structure) belongs ...
 134-258 7.13e-05

DEXH-box helicase domain of Hef; Hef (helicase-associated endonuclease fork-structure) belongs to the XPF/MUS81/FANCM family of endonucleases and is involved in stalled replication fork repair. All archaea encode a protein of the XPF/MUS81/FANCM family of endonucleases. It exists in two forms: a long form, referred as Hef which consists of an N-terminal helicase fused to a C-terminal nuclease and is specific to euryarchaea and a short form, referred as XPF which lacks the helicase domain and is specific to crenarchaea and thaumarchaea. Hef has the unique feature of having both active helicase and nuclease domains. This domain configuration is highly similar with the human FANCM, a possible ortholog of archaeal Hef proteins. Hef is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350793 [Multi-domain]  Cd Length: 181  Bit Score: 44.81  E-value: 7.13e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  134 QQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDvGVVVYVAPAKSLVGQVAATVENRFTKTLPAGrTLCGAFT 213
Cdd:cd18035     6 YQVLIAAVALNGNTLIVLPTGLGKTIIAILVAADRLTKKG-GKVLILAPSRPLVEQHAENLKRVLNIPDKIT-SLTGEVK 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 767933042  214 RDYCHNVLN-CQVLITVPECFEILLLAPHRQkwVERIRYVIFDEVH 258
Cdd:cd18035    84 PEERAERWDaSKIIVATPQVIENDLLAGRIT--LDDVSLLIFDEAH 127
DEXHc_ASCC3_1 cd18020
N-terminal DEXH-box helicase domain of Activating signal cointegrator 1 complex subunit 3; ...
 131-266 1.05e-04

N-terminal DEXH-box helicase domain of Activating signal cointegrator 1 complex subunit 3; Activating signal cointegrator 1 complex subunit 3 (ASCC3) is a type II DEAD box helicase that plays a role in the repair of N-alkylated nucleotides. ASCC3 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350778 [Multi-domain]  Cd Length: 199  Bit Score: 44.73  E-value: 1.05e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  131 NAWQQELLDVVDK-NESAVIVAPTSSGKTYASYYCMEKVLRES---------DVGVVVYVAPAKSLvgqvAATVENRFTK 200
Cdd:cd18020     3 NRIQSLVFPVAYKtNENMLICAPTGAGKTNIAMLTILHEIRQHvnqggvikkDDFKIVYIAPMKAL----AAEMVEKFSK 78

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 767933042  201 TL-PAG---RTLCG--AFTRDychNVLNCQVLITVPECFEILLL-APHRQKWVERIRYVIFDEVHYLGREVGA 266
Cdd:cd18020    79 RLaPLGikvKELTGdmQLTKK---EIAETQIIVTTPEKWDVVTRkSSGDVALSQLVRLLIIDEVHLLHDDRGP 148
COG1202 COG1202
Superfamily II helicase, archaea-specific [Replication, recombination and repair];
634-709 1.75e-04

Superfamily II helicase, archaea-specific [Replication, recombination and repair];


Pssm-ID: 440815 [Multi-domain]  Cd Length: 790  Bit Score: 45.65  E-value: 1.75e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  634 YHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFaqDSVYL--DALN---YRQMSGRAGRRGQDLLGNV 708
Cdd:COG1202   453 PYHAGLDYGERKKVERRFADQELAAVVTTAALAAGVDFPASQVIF--DSLAMgiEWLSvqeFHQMLGRAGRPDYHDRGKV 530


                  .
gi 767933042  709 Y 709
Cdd:COG1202   531 Y 531
PRK13767 PRK13767
ATP-dependent helicase; Provisional
 141-260 3.35e-04

ATP-dependent helicase; Provisional


Pssm-ID: 237497 [Multi-domain]  Cd Length: 876  Bit Score: 44.88  E-value: 3.35e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  141 VDKNESAVIVAPTSSGKTYASY---------YCMEKVLRESdvgV-VVYVAPAKSL-----------VGQVAATVEN--- 196
Cdd:PRK13767   44 IHEGKNVLISSPTGSGKTLAAFlaiidelfrLGREGELEDK---VyCLYVSPLRALnndihrnleepLTEIREIAKErge 120

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 767933042  197 ---------RFTKTLPAGRTlcgAFTRDYCHnvlncqVLITVPECFEILLLAPH-RQKwVERIRYVIFDEVHYL 260
Cdd:PRK13767  121 elpeirvaiRTGDTSSYEKQ---KMLKKPPH------ILITTPESLAILLNSPKfREK-LRTVKWVIVDEIHSL 184
SF2_C_RecQ cd18794
C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an ...
 625-702 5.47e-04

C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an evolutionarily conserved class of enzymes, dedicated to preserving genomic integrity by operating in telomere maintenance, DNA repair, and replication. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350181 [Multi-domain]  Cd Length: 134  Bit Score: 41.04  E-value: 5.47e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933042  625 KALAQRGI--GYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMP-CKSVVFAqdSVYLDALNYRQMSGRAGRRG 701
Cdd:cd18794    48 ARLQSKGIsaAAYHAGLEPSDRRDVQRKWLRDKIQVIVATVAFGMGIDKPdVRFVIHY--SLPKSMESYYQESGRAGRDG 125


                  .
gi 767933042  702 Q 702
Cdd:cd18794   126 L 126
SF2_C_Hrq cd18797
C-terminal helicase domain of HrQ family helicases; Yeast Hrq1, similar to RecQ4, plays a role ...
 654-705 2.17e-03

C-terminal helicase domain of HrQ family helicases; Yeast Hrq1, similar to RecQ4, plays a role in DNA inter-strand crosslink (ICL) repair and in telomere maintenance. Hrq1 lacks the Sld2-like domain found in RecQ4. HrQ family helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350184 [Multi-domain]  Cd Length: 146  Bit Score: 39.55  E-value: 2.17e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 767933042  654 GLIRVVTATETLALGIhmpcksvvfaqDSVYLDAL----------NYRQMSGRAGRRGQDLL 705
Cdd:cd18797    91 GELLGVVATNALELGI-----------DIGGLDAVvlagypgslaSLWQQAGRAGRRGKDSL 141
 
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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