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Conserved domains on  [gi|778694529|ref|XP_011653826|]
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uncharacterized ATP-dependent helicase C29A10.10c [Cucumis sativus]

Protein Classification

DEAD/DEAH box helicase( domain architecture ID 13030342)

DEAD/DEAH box-containing ATP-dependent helicase catalyzes the unwinding of DNA or RNA

CATH:  3.40.50.300
EC:  3.6.4.-
Gene Ontology:  GO:0016887|GO:0005524|GO:0004386|GO:0003676
PubMed:  20206133|20225155
SCOP:  3002019

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DEXXQc_SETX cd18042
DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in ...
 681-1063 1.09e-77

DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in transcription, neurogenesis, and antiviral response. SEXT is an R-loop-associated protein that is thought to function as an RNA/DNA helicase. R-loops consist of RNA/DNA hybrids, formed during transcription when nascent RNA hybridizes to the DNA template strand, displacing the non-template DNA strand. Mutations in SETX are linked to two neurodegenerative disorders: ataxia with oculomotor apraxia type 2 (AOA2) and amyotrophic lateral sclerosis type 4 (ALS4). S. cerevisiae homolog splicing endonuclease 1 (Sen1) is an exclusively nuclear protein, important for nucleolar organization. S. cerevisiae Sen1 and its ortholog, the Schizosaccharomyces pombe Sen1, share conserved domains and belong to the family I class of helicases. Both proteins translocate 5' to 3' and unwind both DNA and RNA duplexes and also RNA/DNA hybrids in vitro. SETX 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: 438712 [Multi-domain]  Cd Length: 218  Bit Score: 255.60  E-value: 1.09e-77
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  681 FNGPQLSAIQWAAthtaagtssgtvkrQEPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYTSLLKKLapesykqah 760
Cdd:cd18042     1 LNESQLEAIASAL--------------QNSPGITLIQGPPGTGKTKTIVGILSVLLAGKYRKYYEKVKKKL--------- 57

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  761 esssdhvntgsidevlqsmdQNLLRTLPTLCPKPRMLVCAPSNAATDELLARVLDRGFIDGEMKVYRPDVARVGvdsqtr 840
Cdd:cd18042    58 --------------------RKLQRNLNNKKKKNRILVCAPSNAAVDEIVLRLLSEGFLDGDGRSYKPNVVRVG------ 111

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  841 aaqavsverrteqllvknrdevlrwmhqlkvretqlgqqmnslqrelnvaaaavrsqgsvgvdpdvlvardqnrdallqn 920
Cdd:cd18042       --------------------------------------------------------------------------------

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  921 laaviegrdkilvemsrllilesryrpnsnfnmedaRASLEASFANEAEIVFTTVSSSGRKLFSRLSHGFDMVVIDEAAQ 1000
Cdd:cd18042   112 ------------------------------------RQELRASILNEADIVCTTLSSSGSDLLESLPRGFDTVIIDEAAQ 155

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 778694529 1001 ASEVAVLPPLSLGAARCVLVGDPQQLPATVISKAAGTLLYSRSLFERFQQAGCPTMLLSVQYR 1063
Cdd:cd18042   156 AVELSTLIPLRLGCKRLILVGDPKQLPATVFSKVAQKLGYDRSLFERLQLAGYPVLMLTTQYR 218
AAA_12 pfam13087
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 1040-1237 4.65e-77

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.


:

Pssm-ID: 463780 [Multi-domain]  Cd Length: 196  Bit Score: 252.85  E-value: 4.65e-77
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  1040 YSRSLFERFQQAG-CPTMLLSVQYRMHPQIRDFPSRYFYQGRLTDSESVANLPDETYYKDPL-LRPYTFFDITHGRESHR 1117
Cdd:pfam13087    1 LDRSLFERLQELGpSAVVMLDTQYRMHPEIMEFPSKLFYGGKLKDGPSVAERPLPDDFHLPDpLGPLVFIDVDGSEEEES 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  1118 GGSVSYQNIHEAQFCLrmyEHLQKTVKSSGIGKVSVGIITPYKLQLKCLQREFEEVLNSEegKDLYINTVDAFQGQERDV 1197
Cdd:pfam13087   81 DGGTSYSNEAEAELVV---QLVEKLIKSGPEEPSDIGVITPYRAQVRLIRKLLKRKLGGK--LEIEVNTVDGFQGREKDV 155

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|.
gi 778694529  1198 IIMSCVRAS-NHGVGFVADIRRMNVALTRARRALWVMGNAN 1237
Cdd:pfam13087  156 IIFSCVRSNeKGGIGFLSDPRRLNVALTRAKRGLIIVGNAK 196
 
Name Accession Description Interval E-value
DEXXQc_SETX cd18042
DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in ...
 681-1063 1.09e-77

DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in transcription, neurogenesis, and antiviral response. SEXT is an R-loop-associated protein that is thought to function as an RNA/DNA helicase. R-loops consist of RNA/DNA hybrids, formed during transcription when nascent RNA hybridizes to the DNA template strand, displacing the non-template DNA strand. Mutations in SETX are linked to two neurodegenerative disorders: ataxia with oculomotor apraxia type 2 (AOA2) and amyotrophic lateral sclerosis type 4 (ALS4). S. cerevisiae homolog splicing endonuclease 1 (Sen1) is an exclusively nuclear protein, important for nucleolar organization. S. cerevisiae Sen1 and its ortholog, the Schizosaccharomyces pombe Sen1, share conserved domains and belong to the family I class of helicases. Both proteins translocate 5' to 3' and unwind both DNA and RNA duplexes and also RNA/DNA hybrids in vitro. SETX 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: 438712 [Multi-domain]  Cd Length: 218  Bit Score: 255.60  E-value: 1.09e-77
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  681 FNGPQLSAIQWAAthtaagtssgtvkrQEPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYTSLLKKLapesykqah 760
Cdd:cd18042     1 LNESQLEAIASAL--------------QNSPGITLIQGPPGTGKTKTIVGILSVLLAGKYRKYYEKVKKKL--------- 57

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  761 esssdhvntgsidevlqsmdQNLLRTLPTLCPKPRMLVCAPSNAATDELLARVLDRGFIDGEMKVYRPDVARVGvdsqtr 840
Cdd:cd18042    58 --------------------RKLQRNLNNKKKKNRILVCAPSNAAVDEIVLRLLSEGFLDGDGRSYKPNVVRVG------ 111

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  841 aaqavsverrteqllvknrdevlrwmhqlkvretqlgqqmnslqrelnvaaaavrsqgsvgvdpdvlvardqnrdallqn 920
Cdd:cd18042       --------------------------------------------------------------------------------

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  921 laaviegrdkilvemsrllilesryrpnsnfnmedaRASLEASFANEAEIVFTTVSSSGRKLFSRLSHGFDMVVIDEAAQ 1000
Cdd:cd18042   112 ------------------------------------RQELRASILNEADIVCTTLSSSGSDLLESLPRGFDTVIIDEAAQ 155

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 778694529 1001 ASEVAVLPPLSLGAARCVLVGDPQQLPATVISKAAGTLLYSRSLFERFQQAGCPTMLLSVQYR 1063
Cdd:cd18042   156 AVELSTLIPLRLGCKRLILVGDPKQLPATVFSKVAQKLGYDRSLFERLQLAGYPVLMLTTQYR 218
AAA_12 pfam13087
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 1040-1237 4.65e-77

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.


Pssm-ID: 463780 [Multi-domain]  Cd Length: 196  Bit Score: 252.85  E-value: 4.65e-77
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  1040 YSRSLFERFQQAG-CPTMLLSVQYRMHPQIRDFPSRYFYQGRLTDSESVANLPDETYYKDPL-LRPYTFFDITHGRESHR 1117
Cdd:pfam13087    1 LDRSLFERLQELGpSAVVMLDTQYRMHPEIMEFPSKLFYGGKLKDGPSVAERPLPDDFHLPDpLGPLVFIDVDGSEEEES 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  1118 GGSVSYQNIHEAQFCLrmyEHLQKTVKSSGIGKVSVGIITPYKLQLKCLQREFEEVLNSEegKDLYINTVDAFQGQERDV 1197
Cdd:pfam13087   81 DGGTSYSNEAEAELVV---QLVEKLIKSGPEEPSDIGVITPYRAQVRLIRKLLKRKLGGK--LEIEVNTVDGFQGREKDV 155

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|.
gi 778694529  1198 IIMSCVRAS-NHGVGFVADIRRMNVALTRARRALWVMGNAN 1237
Cdd:pfam13087  156 IIFSCVRSNeKGGIGFLSDPRRLNVALTRAKRGLIIVGNAK 196
DNA2 COG1112
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];
804-1239 2.84e-62

Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];


Pssm-ID: 440729 [Multi-domain]  Cd Length: 819  Bit Score: 229.24  E-value: 2.84e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  804 AATDELLARVLDRGFIDGEMKVYRPDVARVGVDSQTRAAQAVSVERRTEQLLVKNRDEVLRWMHQLKVRETQLGQQMNSL 883
Cdd:COG1112   375 LEELLLLALLRLLAEGLALLLLLLLAALLRLARALLLLALLLAAAAAALAALLLLALALLAALLALLLLLAAALAALLAL 454

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  884 QRELNVAAAAVRSQGSVGVDPDVLVARDQNRDALLQNLAAVIEGRDKILVEMSRLLI-LESRYRpnsnfNMEDARASLEA 962
Cdd:COG1112   455 LLLLLLALAALLLLLAAAAALLALALLESLLEELIEEHPEELEKLIAELREAARLRRaLRRELK-----KRRELRKLLWD 529

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  963 SFANEAEIVFTTVSSSGRKLfsRLSHG-FDMVVIDEAAQASEVAVLPPLSLgAARCVLVGDPQQLPATVIS---KAAGTL 1038
Cdd:COG1112   530 ALLELAPVVGMTPASVARLL--PLGEGsFDLVIIDEASQATLAEALGALAR-AKRVVLVGDPKQLPPVVFGeeaEEVAEE 606

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1039 LYSRSLFER-FQQAGCPTMLLSVQYRMHPQIRDFPSRYFYQGRLTDSESVANLPDetyykDPLLRPYTFFDiTHGRESHR 1117
Cdd:COG1112   607 GLDESLLDRlLARLPERGVMLREHYRMHPEIIAFSNRLFYDGKLVPLPSPKARRL-----ADPDSPLVFID-VDGVYERR 680

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1118 GGSvsYQNIHEAQFCLRMYEHLQKTvkssGIGKVSVGIITPYKLQLKCLQREFEEVLnSEEGKDLYINTVDAFQGQERDV 1197
Cdd:COG1112   681 GGS--RTNPEEAEAVVELVRELLED----GPDGESIGVITPYRAQVALIRELLREAL-GDGLEPVFVGTVDRFQGDERDV 753

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*..
gi 778694529 1198 IIMSCVRASNHGV----GFVA-DIRRMNVALTRARRALWVMGNANAL 1239
Cdd:COG1112   754 IIFSLVYSNDEDVprnfGFLNgGPRRLNVAVSRARRKLIVVGSRELL 800
AAA_11 pfam13086
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 712-1033 5.56e-62

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.


Pssm-ID: 404072 [Multi-domain]  Cd Length: 248  Bit Score: 212.20  E-value: 5.56e-62
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   712 PFTLVQGPPGTGKTHTVWGMLNVIHLvqyqhyytsllkklapesykqahesssdhvntgsidevlqsmdqnllRTLPTLC 791
Cdd:pfam13086   14 HFTLIQGPPGTGKTTTIVELIRQLLS-----------------------------------------------YPATSAA 46

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   792 PKPRMLVCAPSNAATDELLARVLDRGfidgemKVYRPDVARVGVDSQT-RAAQAVSVERRTEQLLVKNRDevlrwmhqlk 870
Cdd:pfam13086   47 AGPRILVCAPSNAAVDNILERLLRKG------QKYGPKIVRIGHPAAIsEAVLPVSLDYLVESKLNNEED---------- 110

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   871 vretqlGQQMNSLQRELNVAAAAVRSQGSVGVDPDVLVARDQNRDALLQNLAAVIEGRDKIlvemsrllilesryrpnsN 950
Cdd:pfam13086  111 ------AQIVKDISKELEKLAKALRAFEKEIIVEKLLKSRNKDKSKLEQERRKLRSERKEL------------------R 166

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   951 FNMEDARASLEASFANEAEIVFTTVSSSGRKLFSRLShGFDMVVIDEAAQASEVAVLPPLSLGAARCVLVGDPQQLPATV 1030
Cdd:pfam13086  167 KELRRREQSLEREILDEAQIVCSTLSGAGSRLLSSLA-NFDVVIIDEAAQALEPSTLIPLLRGPKKVVLVGDPKQLPPTV 245


                   ...
gi 778694529  1031 ISK 1033
Cdd:pfam13086  246 ISK 248
TIGR00376 TIGR00376
DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of ...
 625-1255 3.82e-61

DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273041 [Multi-domain]  Cd Length: 636  Bit Score: 222.00  E-value: 3.82e-61
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   625 TTQREYVALHAFRRLNMQMQSSILQpspeqfpkYEQQSPAmPECFTQNFVDylhrtfngPQLSAIQWAATHTAAGTSSgt 704
Cdd:TIGR00376  114 TFKRMKEALRALTENHSRLLEFLLG--------REAPSKA-SEIHDFQFFD--------PNLNESQKEAVLFALSSKD-- 174

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   705 vkrqepwpFTLVQGPPGTGKTHTVwgmlnvihlvqyqhyytsllkklapesykqahesssdhvntgsIDEVLQSMDQNll 784
Cdd:TIGR00376  175 --------LFLIHGPPGTGKTRTV-------------------------------------------VELIRQLVKRG-- 201

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   785 rtlptlcpkPRMLVCAPSNAATDELLARVldrgfIDGEMKVYR---PdvARVgVDSQTRAAQAVSVERRTEQLLVKNRDE 861
Cdd:TIGR00376  202 ---------LRVLVTAPSNIAVDNLLERL-----ALCDQKIVRlghP--ARL-LKSNKQHSLDYLIENHPKYQIVADIRE 264

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   862 VLRWMHQLKVRETQLGQQMNSLQRELNVAAAAVRSQGSVGVDPDVLvardqnrdallQNLAAVIEGRDKIlvemSRLLIl 941
Cdd:TIGR00376  265 KIDELIEERNKKTKPSPQKRRGLSDIKILRKALKKREARGIESLKI-----------ASMAEWIETNKSI----DRLLK- 328

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   942 esryrpnsnfNMEDARASLEASFANEAEIVFTTVSSSGRKLFSrlshgFDMVVIDEAAQASEVAVLPPLsLGAARCVLVG 1021
Cdd:TIGR00376  329 ----------LLPESEERIMNEILAESDATNSMAGSEILNGQY-----FDVAVIDEASQAMEPSCLIPL-LKARKLILAG 392

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  1022 DPQQLPATVISKAAGTLlySRSLFERF-QQAGCPTMLLSVQYRMHPQIRDFPSRYFYQGRLTDSESVANL---------P 1091
Cdd:TIGR00376  393 DHKQLPPTILSHDAEEL--SLTLFERLiKEYPERSRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANIllrdlpkveA 470

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  1092 DETYYKDPLLRPYTFFDIT--HGRESHRGGSVSYQNIHEAQFCLrmyEHLQKTVKsSGIGKVSVGIITPYKLQLKCLQRE 1169
Cdd:TIGR00376  471 TESEDDLETGIPLLFIDTSgcELFELKEADSTSKYNPGEAELVS---EIIQALVK-MGVPANDIGVITPYDAQVDLLRQL 546

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  1170 FEevlnsEEGKDLYINTVDAFQGQERDVIIMSCVRASNHG-VGFVADIRRMNVALTRARRALWVMGNANALIQSDDWAAL 1248
Cdd:TIGR00376  547 LE-----HRHIDIEVSSVDGFQGREKEVIIISFVRSNRKGeVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNHKFYKRL 621


                   ....*..
gi 778694529  1249 ITDAKAR 1255
Cdd:TIGR00376  622 IEWCKQH 628
SF1_C_Upf1 cd18808
C-terminal helicase domain of Upf1-like family helicases; The Upf1-like helicase family ...
 1064-1253 1.58e-60

C-terminal helicase domain of Upf1-like family helicases; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), and similar proteins. They are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 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: 350195 [Multi-domain]  Cd Length: 184  Bit Score: 205.16  E-value: 1.58e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1064 MHPQIRDFPSRYFYQGRLTDSESVANLPDeTYYKDPLLRPYTFFDiTHGRESHRGGSVSYQNIHEAQFCLRMYEHLqktv 1143
Cdd:cd18808     1 MHPEISEFPSKLFYEGKLKAGVSVAARLN-PPPLPGPSKPLVFVD-VSGGEEREESGTSKSNEAEAELVVELVKYL---- 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1144 KSSGIGKVSVGIITPYKLQLKCLQREFEEvlNSEEGKDLYINTVDAFQGQERDVIIMSCVRASNHG--VGFVADIRRMNV 1221
Cdd:cd18808    75 LKSGVKPSSIGVITPYRAQVALIRELLRK--RGGLLEDVEVGTVDNFQGREKDVIILSLVRSNESGgsIGFLSDPRRLNV 152

                         170       180       190
                  ....*....|....*....|....*....|..
gi 778694529 1222 ALTRARRALWVMGNANALIQSDDWAALITDAK 1253
Cdd:cd18808   153 ALTRAKRGLIIVGNPDTLSKDPLWKKLLEYLE 184
 
Name Accession Description Interval E-value
DEXXQc_SETX cd18042
DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in ...
 681-1063 1.09e-77

DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in transcription, neurogenesis, and antiviral response. SEXT is an R-loop-associated protein that is thought to function as an RNA/DNA helicase. R-loops consist of RNA/DNA hybrids, formed during transcription when nascent RNA hybridizes to the DNA template strand, displacing the non-template DNA strand. Mutations in SETX are linked to two neurodegenerative disorders: ataxia with oculomotor apraxia type 2 (AOA2) and amyotrophic lateral sclerosis type 4 (ALS4). S. cerevisiae homolog splicing endonuclease 1 (Sen1) is an exclusively nuclear protein, important for nucleolar organization. S. cerevisiae Sen1 and its ortholog, the Schizosaccharomyces pombe Sen1, share conserved domains and belong to the family I class of helicases. Both proteins translocate 5' to 3' and unwind both DNA and RNA duplexes and also RNA/DNA hybrids in vitro. SETX 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: 438712 [Multi-domain]  Cd Length: 218  Bit Score: 255.60  E-value: 1.09e-77
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  681 FNGPQLSAIQWAAthtaagtssgtvkrQEPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYTSLLKKLapesykqah 760
Cdd:cd18042     1 LNESQLEAIASAL--------------QNSPGITLIQGPPGTGKTKTIVGILSVLLAGKYRKYYEKVKKKL--------- 57

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  761 esssdhvntgsidevlqsmdQNLLRTLPTLCPKPRMLVCAPSNAATDELLARVLDRGFIDGEMKVYRPDVARVGvdsqtr 840
Cdd:cd18042    58 --------------------RKLQRNLNNKKKKNRILVCAPSNAAVDEIVLRLLSEGFLDGDGRSYKPNVVRVG------ 111

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  841 aaqavsverrteqllvknrdevlrwmhqlkvretqlgqqmnslqrelnvaaaavrsqgsvgvdpdvlvardqnrdallqn 920
Cdd:cd18042       --------------------------------------------------------------------------------

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  921 laaviegrdkilvemsrllilesryrpnsnfnmedaRASLEASFANEAEIVFTTVSSSGRKLFSRLSHGFDMVVIDEAAQ 1000
Cdd:cd18042   112 ------------------------------------RQELRASILNEADIVCTTLSSSGSDLLESLPRGFDTVIIDEAAQ 155

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 778694529 1001 ASEVAVLPPLSLGAARCVLVGDPQQLPATVISKAAGTLLYSRSLFERFQQAGCPTMLLSVQYR 1063
Cdd:cd18042   156 AVELSTLIPLRLGCKRLILVGDPKQLPATVFSKVAQKLGYDRSLFERLQLAGYPVLMLTTQYR 218
AAA_12 pfam13087
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 1040-1237 4.65e-77

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.


Pssm-ID: 463780 [Multi-domain]  Cd Length: 196  Bit Score: 252.85  E-value: 4.65e-77
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  1040 YSRSLFERFQQAG-CPTMLLSVQYRMHPQIRDFPSRYFYQGRLTDSESVANLPDETYYKDPL-LRPYTFFDITHGRESHR 1117
Cdd:pfam13087    1 LDRSLFERLQELGpSAVVMLDTQYRMHPEIMEFPSKLFYGGKLKDGPSVAERPLPDDFHLPDpLGPLVFIDVDGSEEEES 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  1118 GGSVSYQNIHEAQFCLrmyEHLQKTVKSSGIGKVSVGIITPYKLQLKCLQREFEEVLNSEegKDLYINTVDAFQGQERDV 1197
Cdd:pfam13087   81 DGGTSYSNEAEAELVV---QLVEKLIKSGPEEPSDIGVITPYRAQVRLIRKLLKRKLGGK--LEIEVNTVDGFQGREKDV 155

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|.
gi 778694529  1198 IIMSCVRAS-NHGVGFVADIRRMNVALTRARRALWVMGNAN 1237
Cdd:pfam13087  156 IIFSCVRSNeKGGIGFLSDPRRLNVALTRAKRGLIIVGNAK 196
DNA2 COG1112
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];
804-1239 2.84e-62

Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];


Pssm-ID: 440729 [Multi-domain]  Cd Length: 819  Bit Score: 229.24  E-value: 2.84e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  804 AATDELLARVLDRGFIDGEMKVYRPDVARVGVDSQTRAAQAVSVERRTEQLLVKNRDEVLRWMHQLKVRETQLGQQMNSL 883
Cdd:COG1112   375 LEELLLLALLRLLAEGLALLLLLLLAALLRLARALLLLALLLAAAAAALAALLLLALALLAALLALLLLLAAALAALLAL 454

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  884 QRELNVAAAAVRSQGSVGVDPDVLVARDQNRDALLQNLAAVIEGRDKILVEMSRLLI-LESRYRpnsnfNMEDARASLEA 962
Cdd:COG1112   455 LLLLLLALAALLLLLAAAAALLALALLESLLEELIEEHPEELEKLIAELREAARLRRaLRRELK-----KRRELRKLLWD 529

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  963 SFANEAEIVFTTVSSSGRKLfsRLSHG-FDMVVIDEAAQASEVAVLPPLSLgAARCVLVGDPQQLPATVIS---KAAGTL 1038
Cdd:COG1112   530 ALLELAPVVGMTPASVARLL--PLGEGsFDLVIIDEASQATLAEALGALAR-AKRVVLVGDPKQLPPVVFGeeaEEVAEE 606

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1039 LYSRSLFER-FQQAGCPTMLLSVQYRMHPQIRDFPSRYFYQGRLTDSESVANLPDetyykDPLLRPYTFFDiTHGRESHR 1117
Cdd:COG1112   607 GLDESLLDRlLARLPERGVMLREHYRMHPEIIAFSNRLFYDGKLVPLPSPKARRL-----ADPDSPLVFID-VDGVYERR 680

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1118 GGSvsYQNIHEAQFCLRMYEHLQKTvkssGIGKVSVGIITPYKLQLKCLQREFEEVLnSEEGKDLYINTVDAFQGQERDV 1197
Cdd:COG1112   681 GGS--RTNPEEAEAVVELVRELLED----GPDGESIGVITPYRAQVALIRELLREAL-GDGLEPVFVGTVDRFQGDERDV 753

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*..
gi 778694529 1198 IIMSCVRASNHGV----GFVA-DIRRMNVALTRARRALWVMGNANAL 1239
Cdd:COG1112   754 IIFSLVYSNDEDVprnfGFLNgGPRRLNVAVSRARRKLIVVGSRELL 800
AAA_11 pfam13086
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 712-1033 5.56e-62

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.


Pssm-ID: 404072 [Multi-domain]  Cd Length: 248  Bit Score: 212.20  E-value: 5.56e-62
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   712 PFTLVQGPPGTGKTHTVWGMLNVIHLvqyqhyytsllkklapesykqahesssdhvntgsidevlqsmdqnllRTLPTLC 791
Cdd:pfam13086   14 HFTLIQGPPGTGKTTTIVELIRQLLS-----------------------------------------------YPATSAA 46

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   792 PKPRMLVCAPSNAATDELLARVLDRGfidgemKVYRPDVARVGVDSQT-RAAQAVSVERRTEQLLVKNRDevlrwmhqlk 870
Cdd:pfam13086   47 AGPRILVCAPSNAAVDNILERLLRKG------QKYGPKIVRIGHPAAIsEAVLPVSLDYLVESKLNNEED---------- 110

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   871 vretqlGQQMNSLQRELNVAAAAVRSQGSVGVDPDVLVARDQNRDALLQNLAAVIEGRDKIlvemsrllilesryrpnsN 950
Cdd:pfam13086  111 ------AQIVKDISKELEKLAKALRAFEKEIIVEKLLKSRNKDKSKLEQERRKLRSERKEL------------------R 166

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   951 FNMEDARASLEASFANEAEIVFTTVSSSGRKLFSRLShGFDMVVIDEAAQASEVAVLPPLSLGAARCVLVGDPQQLPATV 1030
Cdd:pfam13086  167 KELRRREQSLEREILDEAQIVCSTLSGAGSRLLSSLA-NFDVVIIDEAAQALEPSTLIPLLRGPKKVVLVGDPKQLPPTV 245


                   ...
gi 778694529  1031 ISK 1033
Cdd:pfam13086  246 ISK 248
TIGR00376 TIGR00376
DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of ...
 625-1255 3.82e-61

DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273041 [Multi-domain]  Cd Length: 636  Bit Score: 222.00  E-value: 3.82e-61
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   625 TTQREYVALHAFRRLNMQMQSSILQpspeqfpkYEQQSPAmPECFTQNFVDylhrtfngPQLSAIQWAATHTAAGTSSgt 704
Cdd:TIGR00376  114 TFKRMKEALRALTENHSRLLEFLLG--------REAPSKA-SEIHDFQFFD--------PNLNESQKEAVLFALSSKD-- 174

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   705 vkrqepwpFTLVQGPPGTGKTHTVwgmlnvihlvqyqhyytsllkklapesykqahesssdhvntgsIDEVLQSMDQNll 784
Cdd:TIGR00376  175 --------LFLIHGPPGTGKTRTV-------------------------------------------VELIRQLVKRG-- 201

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   785 rtlptlcpkPRMLVCAPSNAATDELLARVldrgfIDGEMKVYR---PdvARVgVDSQTRAAQAVSVERRTEQLLVKNRDE 861
Cdd:TIGR00376  202 ---------LRVLVTAPSNIAVDNLLERL-----ALCDQKIVRlghP--ARL-LKSNKQHSLDYLIENHPKYQIVADIRE 264

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   862 VLRWMHQLKVRETQLGQQMNSLQRELNVAAAAVRSQGSVGVDPDVLvardqnrdallQNLAAVIEGRDKIlvemSRLLIl 941
Cdd:TIGR00376  265 KIDELIEERNKKTKPSPQKRRGLSDIKILRKALKKREARGIESLKI-----------ASMAEWIETNKSI----DRLLK- 328

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   942 esryrpnsnfNMEDARASLEASFANEAEIVFTTVSSSGRKLFSrlshgFDMVVIDEAAQASEVAVLPPLsLGAARCVLVG 1021
Cdd:TIGR00376  329 ----------LLPESEERIMNEILAESDATNSMAGSEILNGQY-----FDVAVIDEASQAMEPSCLIPL-LKARKLILAG 392

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  1022 DPQQLPATVISKAAGTLlySRSLFERF-QQAGCPTMLLSVQYRMHPQIRDFPSRYFYQGRLTDSESVANL---------P 1091
Cdd:TIGR00376  393 DHKQLPPTILSHDAEEL--SLTLFERLiKEYPERSRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANIllrdlpkveA 470

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  1092 DETYYKDPLLRPYTFFDIT--HGRESHRGGSVSYQNIHEAQFCLrmyEHLQKTVKsSGIGKVSVGIITPYKLQLKCLQRE 1169
Cdd:TIGR00376  471 TESEDDLETGIPLLFIDTSgcELFELKEADSTSKYNPGEAELVS---EIIQALVK-MGVPANDIGVITPYDAQVDLLRQL 546

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  1170 FEevlnsEEGKDLYINTVDAFQGQERDVIIMSCVRASNHG-VGFVADIRRMNVALTRARRALWVMGNANALIQSDDWAAL 1248
Cdd:TIGR00376  547 LE-----HRHIDIEVSSVDGFQGREKEVIIISFVRSNRKGeVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNHKFYKRL 621


                   ....*..
gi 778694529  1249 ITDAKAR 1255
Cdd:TIGR00376  622 IEWCKQH 628
SF1_C_Upf1 cd18808
C-terminal helicase domain of Upf1-like family helicases; The Upf1-like helicase family ...
 1064-1253 1.58e-60

C-terminal helicase domain of Upf1-like family helicases; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), and similar proteins. They are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 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: 350195 [Multi-domain]  Cd Length: 184  Bit Score: 205.16  E-value: 1.58e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1064 MHPQIRDFPSRYFYQGRLTDSESVANLPDeTYYKDPLLRPYTFFDiTHGRESHRGGSVSYQNIHEAQFCLRMYEHLqktv 1143
Cdd:cd18808     1 MHPEISEFPSKLFYEGKLKAGVSVAARLN-PPPLPGPSKPLVFVD-VSGGEEREESGTSKSNEAEAELVVELVKYL---- 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1144 KSSGIGKVSVGIITPYKLQLKCLQREFEEvlNSEEGKDLYINTVDAFQGQERDVIIMSCVRASNHG--VGFVADIRRMNV 1221
Cdd:cd18808    75 LKSGVKPSSIGVITPYRAQVALIRELLRK--RGGLLEDVEVGTVDNFQGREKDVIILSLVRSNESGgsIGFLSDPRRLNV 152

                         170       180       190
                  ....*....|....*....|....*....|..
gi 778694529 1222 ALTRARRALWVMGNANALIQSDDWAALITDAK 1253
Cdd:cd18808   153 ALTRAKRGLIIVGNPDTLSKDPLWKKLLEYLE 184
DEXXQc_UPF1 cd18039
DEXXQ-box helicase domain of UPF1; UPF1 (also called RNA Helicase And ATPase, Regulator Of ...
 712-1063 3.09e-30

DEXXQ-box helicase domain of UPF1; UPF1 (also called RNA Helicase And ATPase, Regulator Of Nonsense Transcripts, or ATP-Dependent Helicase RENT1) is an RNA-dependent helicase and ATPase required for nonsense-mediated decay (NMD) of mRNAs containing premature stop codons. It is recruited to mRNAs upon translation termination and undergoes a cycle of phosphorylation and dephosphorylation; its phosphorylation appears to be a key step in NMD. It is recruited by release factors to stalled ribosomes together with the SMG1C protein kinase complex to form the transient SURF (SMG1-UPF1-eRF1-eRF3) complex. In EJC-dependent NMD, the SURF complex associates with the exon junction complex (EJC) located downstream from the termination codon through UPF2 and allows the formation of an UPF1-UPF2-UPF3 surveillance complex which is believed to activate NMD. Diseases associated with UPF1 include juvenile amyotrophic lateral sclerosis and epidermolysis bullosa, junctional, non-Herlitz type. UPF1 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: 350797 [Multi-domain]  Cd Length: 234  Bit Score: 120.04  E-value: 3.09e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  712 PFTLVQGPPGTGKTHTVWGMlnVIHLVQyqhyytsllkklapesykqahesssdhvntgsidevlQSMDQnllrtlptlc 791
Cdd:cd18039    17 PLSLIQGPPGTGKTVTSATI--VYHLVK-------------------------------------QGNGP---------- 47

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  792 pkprMLVCAPSNAATDELLARVLDRGfidgeMKVYRpdvarvgVDSQTRAAQAVSVERRTEQLLVKNRDevlrwmhqlKV 871
Cdd:cd18039    48 ----VLVCAPSNVAVDQLTEKIHQTG-----LKVVR-------LCAKSREAVESPVSFLALHNQVRNLD---------SA 102

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  872 RETQLGQQMNSLQRELNVAAaavrsqgsvgvdpdvlvardqnrdallqnlaaviegrdkilvemsrllilESRYRpnsnf 951
Cdd:cd18039   103 EKLELLKLLKLETGELSSAD--------------------------------------------------EKRYR----- 127

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  952 nmeDARASLEASFANEAEIVFTTVSSSGRKLFSRLShgFDMVVIDEAAQASEVAVLPPLSLGAARCVLVGDPQQLPATVI 1031
Cdd:cd18039   128 ---KLKRKAERELLRNADVICCTCVGAGDPRLSKMK--FRTVLIDEATQATEPECLIPLVHGAKQVILVGDHCQLGPVVM 202

                         330       340       350
                  ....*....|....*....|....*....|..
gi 778694529 1032 SKAAGTLLYSRSLFERFQQAGCPTMLLSVQYR 1063
Cdd:cd18039   203 CKKAAKAGLSQSLFERLVQLGIRPIRLQVQYR 234
DEXXQc_SMUBP2 cd18044
DEXXQ-box helicase domain of SMUBP2; SMUBP2 (also called immunoglobulin mu-binding protein 2, ...
 957-1063 4.36e-22

DEXXQ-box helicase domain of SMUBP2; SMUBP2 (also called immunoglobulin mu-binding protein 2, or IGHMBP2) is a 5' to 3' helicase that unwinds RNA and DNA duplexes in an ATP-dependent reaction. It is a DNA-binding protein specific to 5'-phosphorylated single-stranded guanine-rich sequence (5'-GGGCT-3') related to the immunoglobulin mu chain switch region. The IGHMBP2 gene is responsible for Charcot-Marie-Tooth disease (CMT) type 2S and spinal muscular atrophy with respiratory distress type 1 (SMARD1). It is also thought to play a role in frontotemporal dementia (FTD) with amyotrophic lateral sclerosis (ALS) and major depressive disorder (MDD). SMUBP2 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: 350802 [Multi-domain]  Cd Length: 191  Bit Score: 95.37  E-value: 4.36e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  957 RASLEASFanEAEIVFTTVSSSGRKLFSRLSHgFDMVVIDEAAQASEVAVLPPLsLGAARCVLVGDPQQLPATVISKAAG 1036
Cdd:cd18044    87 DHSLDALV--AAQVVLATNTGAGSRQLLPNEL-FDVVVIDEAAQALEASCWIPL-LKARRCILAGDHKQLPPTILSDKAA 162

                          90       100
                  ....*....|....*....|....*....
gi 778694529 1037 TLLYSRSLFERFQQAGCPTM--LLSVQYR 1063
Cdd:cd18044   163 RGGLGVTLFERLVNLYGESVvrMLTVQYR 191
DEXXQc_Helz-like cd18038
DEXXQ/H-box helicase domain of Helz-like helicase; This subfamily contains HELZ, Mov10L1, and ...
 682-1067 1.50e-17

DEXXQ/H-box helicase domain of Helz-like helicase; This subfamily contains HELZ, Mov10L1, and similar proteins. Helicase with zinc finger (HELZ) acts as a helicase that plays a role in RNA metabolism during development. Moloney leukemia virus 10-like protein 1 (Mov10L1) binds Piwi-interacting RNA (piRNA) precursors to initiate piRNA processing. All 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: 350796 [Multi-domain]  Cd Length: 229  Bit Score: 83.44  E-value: 1.50e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  682 NGPQLSAIQwaatHTAAGTSSgtvkrqePWPFtLVQGPPGTGKTHTVwgmlnvihlvqyqhyytsllkklapesykqahe 761
Cdd:cd18038     3 NDEQKLAVR----NIVTGTSR-------PPPY-IIFGPPGTGKTVTL--------------------------------- 37

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  762 sssdhvntgsIDEVLQsmdqnLLRTLPtlcpKPRMLVCAPSNAATDELLARVLDRgfidgemkvyrpdvarvgvdsqtra 841
Cdd:cd18038    38 ----------VEAILQ-----VLRQPP----EARILVCAPSNSAADLLAERLLNA------------------------- 73

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  842 aqavsverrteqllVKNRDEVLRwmhqlkvretqlgqqMNSLQRELNvaaaavrsqgsvGVDPDVlvardqnrdallqnl 921
Cdd:cd18038    74 --------------LVTKREILR---------------LNAPSRDRA------------SVPPEL--------------- 97

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  922 aaviegrdkilvemsrllilesryRPNSNFNMEDARASLEASFANEAEIVFTTVSSSGR--KLFSRLSHgFDMVVIDEAA 999
Cdd:cd18038    98 ------------------------LPYCNSKAEGTFRLPSLEELKKYRIVVCTLMTAGRlvQAGVPNGH-FTHIFIDEAG 152

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 778694529 1000 QASEVAVLPPLSLGAA---RCVLVGDPQQLPATVISKAAGTLLYSRSLFERFqqagcptMLLSVQYRMHPQ 1067
Cdd:cd18038   153 QATEPEALIPLSELASkntQIVLAGDPKQLGPVVRSPLARKYGLGKSLLERL-------MERPLYYKDGEY 216
DEXXQc_Upf1-like cd17934
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, ...
 990-1063 1.58e-16

DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), coronavirus Nsp13, and similar proteins. They belong to 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: 438708 [Multi-domain]  Cd Length: 121  Bit Score: 76.89  E-value: 1.58e-16
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 778694529  990 FDMVVIDEAAQASEVAVLPPLsLGAARCVLVGDPQQLPATVISKAAGTLL----YSRSLFERFQQAGCPTMLLSVQYR 1063
Cdd:cd17934    45 VDVVIIDEASQITEPELLIAL-IRAKKVVLVGDPKQLPPVVQEDHAALLGlsfiLSLLLLFRLLLPGSPKVMLDTQYR 121
DEXXQc_DNA2 cd18041
DEXXQ-box helicase domain of DNA2; DNA2 (DNA Replication Helicase/Nuclease 2) possesses ...
 927-1063 2.02e-16

DEXXQ-box helicase domain of DNA2; DNA2 (DNA Replication Helicase/Nuclease 2) possesses different enzymatic activities, such as single-stranded DNA (ssDNA)-dependent ATPase, 5-3 helicase, and endonuclease activities, and is involved in DNA replication and DNA repair in the nucleus and mitochondrion. It is involved in Okazaki fragment processing by cleaving long flaps that escape FEN1: flaps that are longer than 27 nucleotides are coated by replication protein A complex (RPA), leading to recruit DNA2 which cleaves the flap until it is too short to bind RPA and becomes a substrate for FEN1. It is also involved in 5-end resection of DNA during double-strand break (DSB) repair; it is recruited by BLM and mediates the cleavage of 5-ssDNA, while the 3-ssDNA cleavage is prevented by the presence of RPA. DNA2 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: 350799 [Multi-domain]  Cd Length: 203  Bit Score: 79.20  E-value: 2.02e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  927 GRDKILVEMSRLLILESRYRPNSNFnmEDARASLEasfanEAEIVFTTVSSSGRKLFSRLShgFDMVVIDEAAQASEVAV 1006
Cdd:cd18041    76 GRLKKIHPDVQEFTLEAILKSCKSV--EELESKYE-----SVSVVATTCLGINHPIFRRRT--FDYCIVDEASQITLPIC 146

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 778694529 1007 LPPLSLgAARCVLVGDPQQLPATVISKAAGTLLYSRSLFERFQQAGcPTML--LSVQYR 1063
Cdd:cd18041   147 LGPLRL-AKKFVLVGDHYQLPPLVKSREARELGMDESLFKRLSEAH-PDAVvqLTIQYR 203
SF1_C cd18786
C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family ...
 1149-1230 1.08e-10

C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Similar to SF2 helicases, they do not form toroidal, predominantly hexameric structures like SF3-6. SF1 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Their helicase core is surrounded by C- and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains, or domains engaged in protein-protein interactions. The 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: 350173 [Multi-domain]  Cd Length: 89  Bit Score: 59.37  E-value: 1.08e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1149 GKVSVGIITPYKLQ----LKCLQREFEEVLNSEEGkdlYINTVDAFQGQERDVIIMSCVRASNHgvgfvaDIRRMNVALT 1224
Cdd:cd18786     9 GLYKGVVLTPYHRDraylNQYLQGLSLDEFDLQLV---GAITIDSSQGLTFDVVTLYLPTANSL------TPRRLYVALT 79


                  ....*.
gi 778694529 1225 RARRAL 1230
Cdd:cd18786    80 RARKRL 85
EEXXQc_AQR cd17935
EEXXQ-box helicase domain of AQR; Aquarius (AQR) is a multifunctional RNA helicase that binds ...
 967-1075 1.27e-10

EEXXQ-box helicase domain of AQR; Aquarius (AQR) is a multifunctional RNA helicase that binds precursor-mRNA introns at a defined position and is part of a pentameric intron-binding complex (IBC). It 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: 350693 [Multi-domain]  Cd Length: 207  Bit Score: 62.44  E-value: 1.27e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  967 EAEIVFTTVSSSG--RKLFSRLSHGFDMVVIDEAAQASEVAVLPPLSLGAA--------RCVLVGDPQQLPATVISKAAG 1036
Cdd:cd17935    86 GAKIIAMTCTHAAlkRGELVELGFKYDNILMEEAAQILEIETFIPLLLQNPedgpnrlkRLIMIGDHHQLPPVIKNMAFQ 165

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 778694529 1037 TLLYS-RSLFERFQQAGCPTMLLSVQYRMHPQI-RDFPSRY 1075
Cdd:cd17935   166 KYSNMeQSLFTRLVRLGVPTVDLDAQGRARASIsSLYNWRY 206
DEXXc_HELZ2-C cd18040
C-terminal DEXX-box helicase domain of HELZ2; Helicase with zinc finger 2 (HELZ2, also known ...
 705-1063 3.42e-09

C-terminal DEXX-box helicase domain of HELZ2; Helicase with zinc finger 2 (HELZ2, also known as PPAR-alpha-interacting complex protein 285 or PRIC285 and PPAR-gamma DBD-interacting protein 1 or PDIP1) acts as a transcriptional coactivator for a number of nuclear receptors including PPARA, PPARG, THRA, THRB and RXRA. It belongs to 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: 350798 [Multi-domain]  Cd Length: 271  Bit Score: 59.46  E-value: 3.42e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  705 VKRQEPWPFTLVQGPPGTGKTHTVwgmlnvIHLVQYQHyytsllkklapesykqahesssdhvntgsidevlqSMDQNLL 784
Cdd:cd18040    10 VRTALTKPFTLIQGPPGTGKTVTG------VHIAYWFA-----------------------------------KQNREIQ 48

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  785 RTLPTLCPKPRMLVCAPSNAATD---ELLARVldrgfidGEMK---VYRPDVARVGVDSQTRAAQAVSVERRTEQLLVKN 858
Cdd:cd18040    49 SVSGEGDGGPCVLYCGPSNKSVDvvaELLLKV-------PGLKilrVYSEQIETTEYPIPNEPRHPNKKSERESKPNSEL 121

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  859 RDEVLRwmHQLKVRETQLGQQMNSLQRELNVAAAAVRSQgsvgvdpDVlvarDQNRDALLQNLAAVIEGRDKILVEMSrl 938
Cdd:cd18040   122 SSITLH--HRIRQPSNPHSQQIKAFEARFERTQEKITEE-------DI----KTYKILIWEARFEELETVDVILCTCS-- 186

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  939 lilesryrpnsnfnmEDARASLEASfANEAEIVfttvsssgrklfsrlshgfdmvvIDEAAQASEVAVLPPLSlGAARC- 1017
Cdd:cd18040   187 ---------------EAASQKMRTH-ANVKQCI-----------------------VDECGMCTEPESLIPIV-SAPRAe 226

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*...
gi 778694529 1018 --VLVGDPQQLPATVISKAAGTLLYSRSLFERFQQAGCptmLLSVQYR 1063
Cdd:cd18040   227 qvVLIGDHKQLRPVVQNKEAQKLGLGRSLFERYAEKAC---MLDTQYR 271
DEXXQc_Mov10L1 cd18078
DEXXQ-box helicase domain of Mov10L1; Moloney leukemia virus 10-like protein 1 (Mov10L1) binds ...
 961-1048 6.07e-09

DEXXQ-box helicase domain of Mov10L1; Moloney leukemia virus 10-like protein 1 (Mov10L1) binds Piwi-interacting RNA (piRNA) precursors to initiate piRNA processing. Mov10L1 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: 350836 [Multi-domain]  Cd Length: 230  Bit Score: 58.15  E-value: 6.07e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  961 EASFANEAEIVFTTVSSSGRKLFSRLSHG-FDMVVIDEAAQASEVAVLPPLSL---GAARCVLVGDPQQLPATVISKAAG 1036
Cdd:cd18078   107 DLSKASRHRIVISTCSTAGLLYQMGLPVGhFTHVFVDEAGQATEPESLIPLGLissRDGQIILAGDPMQLGPVIKSRLAS 186

                          90
                  ....*....|..
gi 778694529 1037 TLLYSRSLFERF 1048
Cdd:cd18078   187 AYGLGVSFLERL 198
DExxQc_SF1-N cd17914
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ...
 990-1062 9.02e-09

DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Like SF2, they do not form toroidal, predominantly hexameric structures like SF3-6. Their helicase core is surrounded by C and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains or domains engaged in protein-protein interactions. SF1 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: 438706 [Multi-domain]  Cd Length: 121  Bit Score: 54.80  E-value: 9.02e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 778694529  990 FDMVVIDEAAQASEV--AVLPPLSLGAARCVLVGDPQQLPATVISKAAGTLLYSRSLFERFQQAGCPTMLLSVQY 1062
Cdd:cd17914    47 LDNILVDEAAQILEPetSRLIDLALDQGRVILVGDHDQLGPVWRGAVLAKICNEQSLFTRLVRLGVSLIRLQVQY 121
betaCoV_Nsp13-helicase cd21722
helicase domain of betacoronavirus non-structural protein 13; This model represents the ...
 991-1248 3.49e-08

helicase domain of betacoronavirus non-structural protein 13; This model represents the helicase domain of non-structural protein 13 (Nsp13) from betacoronavirus, including pathogenic human viruses such as Severe acute respiratory syndrome coronavirus (SARS-CoV), SARS-CoV2 (also called 2019 novel CoV or 2019-nCoV), and Middle East respiratory syndrome-related (MERS) CoV. Helicases catalyze NTP-dependent unwinding of nucleic acid duplexes into single strands and are classified based on the arrangement of conserved motifs into six superfamilies. CoV Nsp13 is a member of the helicase superfamily 1 (SF1); SF1 and SF2 helicases do not form toroidal structures, while SF3-6 helicases do. Nsp13 is a component of the viral RNA synthesis replication and transcription complex (RTC). It is a multidomain protein containing a Cys/His rich zinc-binding domain (CH/ZBD), a stalk domain, a 1B domain involved in nucleic acid substrate binding, and a SF1 helicase core.


Pssm-ID: 409655 [Multi-domain]  Cd Length: 340  Bit Score: 57.12  E-value: 3.49e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  991 DMVVIDEAAQASEVavlpPLSLGAARC-----VLVGDPQQLPA--TVISKaaGTL--LYSRSLfERFQQAGCPTMLLSVQ 1061
Cdd:cd21722   119 DILVVDEVSMCTNY----DLSVINARVrakhiVYIGDPAQLPAprTLLTK--GTLepEYFNSV-TRLMCCLGPDIFLGTC 191

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1062 YRMHPQIRDFPSRYFYQGRLTDSESVANLPDETYYKDpllrpytffDITHGREShrggSVSYQNIHEAQFCLRMYEHLQK 1141
Cdd:cd21722   192 YRCPKEIVDTVSALVYDNKLKAKKDNSGQCFKVYYKG---------SVTHDSSS----AINRPQIYLVKKFLKANPAWSK 258

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1142 TVkssgigkvsvgIITPYKLQLKCLQRefeeVLNseegkdLYINTVDAFQGQERDVIIMSCVRASNHGVgfvaDIRRMNV 1221
Cdd:cd21722   259 AV-----------FISPYNSQNAVARR----VLG------LQTQTVDSSQGSEYDYVIYCQTAETAHSV----NVNRFNV 313

                         250       260
                  ....*....|....*....|....*..
gi 778694529 1222 ALTRARRALWVMGNANALIQSDDWAAL 1248
Cdd:cd21722   314 AITRAKKGILCVMSSMQLFESLQFTEL 340
CoV_Nsp13-helicase cd21718
helicase domain of coronavirus non-structural protein 13; This model represents the helicase ...
 991-1248 6.66e-08

helicase domain of coronavirus non-structural protein 13; This model represents the helicase domain of non-structural protein 13 (Nsp13) from alpha-, beta-, gamma-, and deltacoronavirus, including pathogenic human viruses such as Severe acute respiratory syndrome coronavirus (SARS-CoV), SARS-CoV2 (also called 2019 novel CoV or 2019-nCoV), and Middle East respiratory syndrome-related (MERS) CoV. Helicases catalyze NTP-dependent unwinding of nucleic acid duplexes into single strands and are classified based on the arrangement of conserved motifs into six superfamilies. CoV Nsp13 is a member of the helicase superfamily 1 (SF1); SF1 and SF2 helicases do not form toroidal structures, while SF3-6 helicases do. Nsp13 is a component of the viral RNA synthesis replication and transcription complex (RTC). It is a multidomain protein containing a Cys/His rich zinc-binding domain (CH/ZBD), a stalk domain, a 1B domain involved in nucleic acid substrate binding, and a SF1 helicase core.


Pssm-ID: 409652 [Multi-domain]  Cd Length: 341  Bit Score: 56.38  E-value: 6.66e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  991 DMVVIDEAAQAS--EVAVLPPlSLGAARCVLVGDPQQLPATVISKAAGTL--LYSRSLFERFQQAGcPTMLLSVQYRMHP 1066
Cdd:cd21718   119 DIVVVDEVSMCTnyDLSVVNA-RLKYKHIVYVGDPAQLPAPRTLLTEGSLepKDYNVVTRLMVGSG-PDVFLSKCYRCPK 196

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1067 QIRDFPSRYFYQGRLtdsesVANLPDETYykdpllrpyTFFDITHGRESHRGGSvSYqNIHEAQFcLRMYEHLQKTVKSs 1146
Cdd:cd21718   197 EIVDTVSKLVYDNKL-----KAIKPKSRQ---------CFKTFGKGDVRHDNGS-AI-NRPQLEF-VKRFLDRNPRWRK- 258

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1147 gigkvsVGIITPYKLQLKCLQREFeevlnseegkDLYINTVDAFQGQERDVIIMSCVRASNHGVgfvaDIRRMNVALTRA 1226
Cdd:cd21718   259 ------AVFISPYNAMNNRASRLL----------GLSTQTVDSSQGSEYDYVIFCQTTDTAHAL----NINRFNVAITRA 318

                         250       260
                  ....*....|....*....|...
gi 778694529 1227 RRA-LWVMGNANALIQSDDWAAL 1248
Cdd:cd21718   319 KHGiLVIMRDENDLYNALQFKSL 341
DEXXQc_SF1 cd18043
DEXXQ-box helicase domain of Superfamily 1 helicases; Superfamily 1 (SF1) helicases are ...
 990-1027 3.79e-07

DEXXQ-box helicase domain of Superfamily 1 helicases; Superfamily 1 (SF1) helicases are nucleic acid motor proteins that couple ATP hydrolysis to translocation along with the concomitant unwinding of DNA or RNA. This is central to many aspects of cellular DNA and RNA metabolism and accordingly, they are implicated in a wide range of nucleic acid processing events including DNA replication, recombination, and repair as well as many aspects of RNA metabolism. Superfamily 1 helicases 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: 350801 [Multi-domain]  Cd Length: 127  Bit Score: 50.27  E-value: 3.79e-07
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 778694529  990 FDMVVIDEAAQASEVAVLPPLSLGaARCVLVGDPQQLP 1027
Cdd:cd18043    81 FDLVIFDEASQIPIEEALPALFRG-KQVVVVGDDKQLP 117
gammaCoV_Nsp13-helicase cd21720
helicase domain of gammacoronavirus non-structural protein 13; This model represents the ...
 1018-1233 9.59e-06

helicase domain of gammacoronavirus non-structural protein 13; This model represents the helicase domain of non-structural protein 13 (Nsp13) from gammacoronavirus, including Avian infectious bronchitis virus. Helicases catalyze NTP-dependent unwinding of nucleic acid duplexes into single strands and are classified based on the arrangement of conserved motifs into six superfamilies. Coronavirus (CoV) Nsp13 is a member of the helicase superfamily 1 (SF1); SF1 and SF2 helicases do not form toroidal structures, while SF3-6 helicases do. Nsp13 is a component of the viral RNA synthesis replication and transcription complex (RTC). It is a multidomain protein containing a Cys/His rich zinc-binding domain (CH/ZBD), a stalk domain, a 1B domain involved in nucleic acid substrate binding, and a SF1 helicase core.


Pssm-ID: 409653 [Multi-domain]  Cd Length: 343  Bit Score: 49.53  E-value: 9.59e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1018 VLVGDPQQLPA--TVISKAAGTLLYSrsLFERFQQAGCPTMLLSVQYRMHPQIRDFPSRYFYQGrltdsESVANLPDE-T 1094
Cdd:cd21720   147 VYVGDPAQLPAprTLLNGSLSPKDYN--VVTNLMVCVKPDIFLAKCYRCPKEIVDTVSTLVYDG-----KFIANNPESrQ 219

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1095 YYKdpLLRPYTFFDIthGREShrgGSVSYQNIHE--AQFCLRMYEHLQKTvkssgigkvsvgIITPYKlqlKCLQREFEE 1172
Cdd:cd21720   220 CFK--VIVNNGNSDV--GHES---GSAYNTTQLEfvKDFVCRNKEWREAT------------FISPYN---AMNQRAYRM 277

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 778694529 1173 VlnseegkDLYINTVDAFQGQERDVIIMsCVRA-SNHGVgfvaDIRRMNVALTRARRALWVM 1233
Cdd:cd21720   278 L-------GLNVQTVDSSQGSEYDYVIF-CVTAdSQHAL----NINRFNVALTRAKRGILVV 327
DEXXQc_Upf1-like cd17934
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, ...
 713-820 1.82e-05

DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), coronavirus Nsp13, and similar proteins. They belong to 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: 438708 [Multi-domain]  Cd Length: 121  Bit Score: 45.30  E-value: 1.82e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  713 FTLVQGPPGTGKTHTvwgmlnVIHLVQYqhyytsLLKKLapesykqahesssdhvntgsidevlqsmdqnllrtlptlcP 792
Cdd:cd17934     1 ISLIQGPPGTGKTTT------IAAIVLQ------LLKGL----------------------------------------R 28

                          90       100
                  ....*....|....*....|....*...
gi 778694529  793 KPRMLVCAPSNAATDellarVLDRGFID 820
Cdd:cd17934    29 GKRVLVTAQSNVAVD-----NVDVVIID 51
deltaCoV_Nsp13-helicase cd21721
helicase domain of deltacoronavirus non-structural protein 13; This model represents the ...
 972-1242 2.06e-05

helicase domain of deltacoronavirus non-structural protein 13; This model represents the helicase domain of non-structural protein 13 (Nsp13) from deltacoronavirus, including Bulbul coronavirus (CoV) HKU11 and Common moorhen CoV HKU21. Helicases catalyze NTP-dependent unwinding of nucleic acid duplexes into single strands and are classified based on the arrangement of conserved motifs into six superfamilies. CoV Nsp13 is a member of the helicase superfamily 1 (SF1); SF1 and SF2 helicases do not form toroidal structures, while SF3-6 helicases do. Nsp13 is a component of the viral RNA synthesis replication and transcription complex (RTC). It is a multidomain protein containing a Cys/His rich zinc-binding domain (CH/ZBD), a stalk domain, a 1B domain involved in nucleic acid substrate binding, and a SF1 helicase core.


Pssm-ID: 409654 [Multi-domain]  Cd Length: 342  Bit Score: 48.38  E-value: 2.06e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  972 FTTVSSSGRKLFSRLSH----GFDMVVIDEAAQASEVAvlppLSLGAAR-----CVLVGDPQQLPATVISKAAGTLLYS- 1041
Cdd:cd21721    96 FVVNNTTAQYIFSTINAlpdiKCDIVVVDEVSMLTNYE----LSSVNARlvynhIVYVGDPYQLPSPRTMLTTGQLSPAd 171

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1042 -RSLFERFQQAGCPTMLlSVQYRMHPQIRDFPSRYFYQGRLtdseSVANLPDETYYKdpllrpyTFFDITHGRESHRGGS 1120
Cdd:cd21721   172 yNVVTDIMVHAGADVML-DMCYRCPREIVDTVSKLVYDNKL----KAAKPNSRQCYK-------TIINNGNNDIAHEGQS 239

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529 1121 vSYQNIhEAQFCLRMYEHLQKTvkssgigkvSVGIITPYK-LQLKCLQREFEevlnseegkdlyINTVDAFQGQERDVII 1199
Cdd:cd21721   240 -AYNEP-QLRFALAFRQYKRWD---------NVTFISPYNaMNVKAAMAGFS------------TQTVDSSQGSEYDYVI 296

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....
gi 778694529 1200 MSCVRASNHGVgfvaDIRRMNVALTRARRA-LWVMGNANALIQS 1242
Cdd:cd21721   297 FCVTTDSAHAL----NMSRLNVALTRAKIGiLVVFRQANELYNS 336
EEXXEc_NFX1 cd17936
EEXXE-box helicase domain of NFX1; Human NFX1 protein was identified as a protein that ...
 973-1062 6.69e-05

EEXXE-box helicase domain of NFX1; Human NFX1 protein was identified as a protein that represses class II MHC (major histocompatibility complex) gene expression. NFX1 binds a conserved cis-acting element, termed the X-box, in promoters of human class II MHC genes. The Cys-rich region contains several NFX1-type zinc finger domains. Frequently, a R3H domain is present in the C-terminus, and a RING finger domain and a PAM2 motif are present in the N-terminus. The lack of R3H and PAM2 motifs in the plant proteins indicates functional differences. Plant NFX1-like proteins are proposed to modulate growth and survival by coordinating reactive oxygen species, salicylic acid, further biotic stress and abscisic acid responses. A common feature of all members may be E3 ubiquitin ligase, due to the presence of a RING finger domain, as well as DNA binding. NFX1 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: 350694 [Multi-domain]  Cd Length: 178  Bit Score: 45.23  E-value: 6.69e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  973 TTVSSSGRKLFSRLshGFDMVVIDEAAQASEVAVLPPLSLGAARCVLVGDPQQL-PATVISKAAGTLL-YSRSLFERFQQ 1050
Cdd:cd17936    89 TTGAAKYRELLQAL--GPKVVIVEEAAEVLEAHILAALTPSTEHLILIGDHKQLrPKVNVYELTAKKYnLDVSLFERLVK 166

                          90
                  ....*....|..
gi 778694529 1051 AGCPTMLLSVQY 1062
Cdd:cd17936   167 NGLPFVTLNVQR 178
DEXXQc_HELZ cd18077
DEXXQ-box helicase domain of HELZ; Helicase with zinc finger (HELZ) acts as a helicase that ...
 968-1047 9.17e-05

DEXXQ-box helicase domain of HELZ; Helicase with zinc finger (HELZ) acts as a helicase that plays a role in RNA metabolism during development. HELZ is a member of the family I class of RNA helicases 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: 350835 [Multi-domain]  Cd Length: 226  Bit Score: 45.55  E-value: 9.17e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  968 AEIVFTTVSSSGRKLFSRLSHG-FDMVVIDEAAQASEVAVLPPLSLGAA--RCVLVGDPQQLPATVISKAAGTLLYSRSL 1044
Cdd:cd18077   124 HRVVVVTLSTSQYLCQLDLEPGfFTHILLDEAAQAMECEAIMPLALATKstRIVLAGDHMQLSPEVYSEFARERNLHISL 203


                  ...
gi 778694529 1045 FER 1047
Cdd:cd18077   204 LER 206
AAA_30 pfam13604
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 991-1070 3.81e-04

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. There is a Walker A and Walker B.


Pssm-ID: 433343 [Multi-domain]  Cd Length: 191  Bit Score: 42.94  E-value: 3.81e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529   991 DMVVIDEAAQASE---VAVLPPLSLGAARCVLVGDPQQLPATviskAAGtllysrSLFERFQQAGCPTMLLSVQYRM-HP 1066
Cdd:pfam13604   90 TLLIVDEAGMVGTrqmARLLKLAEDAGARVILVGDPRQLPSV----EAG------GAFRDLLAAGIGTAELTEIVRQrDP 159


                   ....
gi 778694529  1067 QIRD 1070
Cdd:pfam13604  160 WQRA 163
EEXXEc_NFX1 cd17936
EEXXE-box helicase domain of NFX1; Human NFX1 protein was identified as a protein that ...
 680-727 1.71e-03

EEXXE-box helicase domain of NFX1; Human NFX1 protein was identified as a protein that represses class II MHC (major histocompatibility complex) gene expression. NFX1 binds a conserved cis-acting element, termed the X-box, in promoters of human class II MHC genes. The Cys-rich region contains several NFX1-type zinc finger domains. Frequently, a R3H domain is present in the C-terminus, and a RING finger domain and a PAM2 motif are present in the N-terminus. The lack of R3H and PAM2 motifs in the plant proteins indicates functional differences. Plant NFX1-like proteins are proposed to modulate growth and survival by coordinating reactive oxygen species, salicylic acid, further biotic stress and abscisic acid responses. A common feature of all members may be E3 ubiquitin ligase, due to the presence of a RING finger domain, as well as DNA binding. NFX1 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: 350694 [Multi-domain]  Cd Length: 178  Bit Score: 40.99  E-value: 1.71e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 778694529  680 TFNGPQLSAIQWAATHtaagtssgtvkrqepwPFTLVQGPPGTGKTHT 727
Cdd:cd17936     1 TLDPSQLEALKHALTS----------------ELALIQGPPGTGKTFL 32
RecD COG0507
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ...
 682-728 1.96e-03

ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];


Pssm-ID: 440273 [Multi-domain]  Cd Length: 514  Bit Score: 42.27  E-value: 1.96e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 778694529  682 NGPQLSAIQWAATHTAAGTSsgtvkrqepwPFTLVQGPPGTGKTHTV 728
Cdd:COG0507   121 AGITLSDEQREAVALALTTR----------RVSVLTGGAGTGKTTTL 157
DEXXQc_HELZ2-N cd18076
N-terminal DEXXQ-box helicase domain of HELZ2; Helicase with zinc finger 2 (HELZ2, also known ...
 970-1053 2.42e-03

N-terminal DEXXQ-box helicase domain of HELZ2; Helicase with zinc finger 2 (HELZ2, also known as PPAR-alpha-interacting complex protein 285 or PRIC285 and PPAR-gamma DBD-interacting protein 1 or PDIP1) acts as a transcriptional coactivator for a number of nuclear receptors including PPARA, PPARG, THRA, THRB, and RXRA. It belongs to 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: 350834 [Multi-domain]  Cd Length: 230  Bit Score: 41.03  E-value: 2.42e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 778694529  970 IVFTTvSSSGRKLFSrLSHGFDMVVIDEAAQASEVAVLPPLSLGA--ARCVLVGDPQQLPATVISKAAG-----TLLYsr 1042
Cdd:cd18076   129 IVITT-TAMAFNLHV-LSGFFTHIFIDEAAQMLECEALIPLSYAGpkTRVVLAGDHMQMTPKLFSVADYnranhTLLN-- 204

                          90
                  ....*....|.
gi 778694529 1043 SLFERFQQAGC 1053
Cdd:cd18076   205 RLFHYYQGEKH 215
DEXXQc_SF1 cd18043
DEXXQ-box helicase domain of Superfamily 1 helicases; Superfamily 1 (SF1) helicases are ...
 682-728 3.30e-03

DEXXQ-box helicase domain of Superfamily 1 helicases; Superfamily 1 (SF1) helicases are nucleic acid motor proteins that couple ATP hydrolysis to translocation along with the concomitant unwinding of DNA or RNA. This is central to many aspects of cellular DNA and RNA metabolism and accordingly, they are implicated in a wide range of nucleic acid processing events including DNA replication, recombination, and repair as well as many aspects of RNA metabolism. Superfamily 1 helicases 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: 350801 [Multi-domain]  Cd Length: 127  Bit Score: 39.10  E-value: 3.30e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 778694529  682 NGPQLSAIQWAATHTAagtssgtvkrqepwpfTLVQGPPGTGKTHTV 728
Cdd:cd18043     1 DSSQEAAIISARNGKN----------------VVIQGPPGTGKSQTI 31
 
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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