|
Name |
Accession |
Description |
Interval |
E-value |
| rad25 |
TIGR00603 |
DNA repair helicase rad25; All proteins in this family for which functions are known are ... |
1-715 |
0e+00 |
|
DNA repair helicase rad25; All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273168 [Multi-domain] Cd Length: 732 Bit Score: 1377.19 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 1 MPLKDDHTSRPLWVAPDGHIFLEAFSPVYKYAQDFLVAIAEPVCRPTHVHEYKLTAYSLYAAVSVGLQTSDITEYLRKLS 80
Cdd:TIGR00603 6 LELKPDHGSRPLWVAPDGHIFLESFSPLYKQAQDFLVAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETEDIIEVLGRLS 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 81 KTGVPDGIMQFIKLCTVSYGKVKLVLKHNRYFVESCHPDVIQHLLQDPVIRECRLRNSEGEatELITETFTSKSAISKTA 160
Cdd:TIGR00603 86 KTPIPKGIIEFIRLCTQSYGKVKLVLKHNRYFVESPHPEVLQRLLKDPVIAPCRIDPTEEE--SLQTPTYGSKEDFIINK 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 161 ES-SGGPSTSRVTDPQGKSDIPMDLFDFYEQMDKDEEEEEETQTVSFEVKQEMIEELQKRCIHLEYPLLAEYDFRNDSVN 239
Cdd:TIGR00603 164 PGfTGGASAGQLEANQGESAVPKDIADFYELEEEEEDEDEETATHSFEIDQEQVEEVKKRCIELDYPLLEEYDFRNDTVN 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 240 PDINIDLKPTAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTAACTVRKRCLVLGNSAVSVEQWKAQFKMWST 319
Cdd:TIGR00603 244 PDLNIDLKPTTQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTVKKSCLVLCTSAVSVEQWKQQFKMWST 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 320 IDDSQICRFTSDAKDKPIG-CSVAISTYSMLGHTTKRSWEAERVMEWLKTQEWGLMILDEVHTIPAKMFRRVLTIVQAHC 398
Cdd:TIGR00603 324 IDDSQICRFTSDAKERFHGeAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVPAAMFRRVLTIVQAHC 403
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 399 KLGLTATLVREDDKIVDLNFLIGPKLYEANWMELQNNGYIAKVQCAEVWCPMSPEFYREYVAIKTKKRILLYTMNPNKFR 478
Cdd:TIGR00603 404 KLGLTATLVREDDKITDLNFLIGPKLYEANWMELQKKGFIANVQCAEVWCPMTPEFYREYLRENSRKRMLLYVMNPNKFR 483
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 479 ACQFLIKFHERRNDKIIVFADNVFALKEYAIRLNKPYIYGPTSQGERMQILQNFKHNPKINTIFISKVGDTSFDLPEANV 558
Cdd:TIGR00603 484 ACQFLIRFHEQRGDKIIVFSDNVFALKEYAIKLGKPFIYGPTSQQERMQILQNFQHNPKVNTIFLSKVGDTSIDLPEANV 563
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 559 LIQISSHGGSRRQEAQRLGRVLRAKKGMVAEEYNAFFYSLVSQDTQEMAYSTKRQRFLVDQGYSFKVITKLAGMEEE-DL 637
Cdd:TIGR00603 564 LIQISSHYGSRRQEAQRLGRILRAKKGSDAEEYNAFFYSLVSKDTQEMYYSTKRQRFLVDQGYSFKVITHLPGMDNEsNL 643
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 638 AFSTKEEQQQLLQKVLAATDLDAEEEVVAGEFGSR-----------SSQASRRFGTMSSMSGADDTVYMEYHSSRSKAPS 706
Cdd:TIGR00603 644 AYSSKEEQLELLQKVLLAGDLDAELEVLEGEFGSRalgasrsmssaSGKAVRRGGSLSSLSGGDDMAYMEYRKPAIKKSK 723
|
....*....
gi 742068541 707 KHVHPLFKR 715
Cdd:TIGR00603 724 KEVHPLFKK 732
|
|
| ERCC3_RAD25_C |
pfam16203 |
ERCC3/RAD25/XPB C-terminal helicase; This is the C-terminal helicase domain of ERCC3, RAD25 ... |
432-678 |
0e+00 |
|
ERCC3/RAD25/XPB C-terminal helicase; This is the C-terminal helicase domain of ERCC3, RAD25 and XPB helicases.
Pssm-ID: 406585 Cd Length: 248 Bit Score: 531.02 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 432 LQNNGYIAKVQCAEVWCPMSPEFYREYVAIKTKKRILLYTMNPNKFRACQFLIKFHERRNDKIIVFADNVFALKEYAIRL 511
Cdd:pfam16203 1 LQEKGHIANVQCAEVWCPMTAEFYREYLRSKSRKKRLLYVMNPNKFRACQFLIRYHERRGDKIIVFSDNVFALKEYAKKL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 512 NKPYIYGPTSQGERMQILQNFKHNPKINTIFISKVGDTSFDLPEANVLIQISSHGGSRRQEAQRLGRVLRAKKGMVAEEY 591
Cdd:pfam16203 81 NKPYIYGGTSQAERMRILQNFKHNPNVNTIFLSKVGDTSIDLPEANVLIQISSHFGSRRQEAQRLGRILRAKRRSNDEGF 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 592 NAFFYSLVSQDTQEMAYSTKRQRFLVDQGYSFKVITKLAGMEE-EDLAFSTKEEQQQLLQKVLAATDLDAEEEVVAGEFG 670
Cdd:pfam16203 161 NAFFYSLVSKDTQEMYYSTKRQQFLVDQGYAFKVITNLAGMEDeENLAYSTKEEQLELLQKVLAANDTDAEEEVIADDLG 240
|
....*...
gi 742068541 671 SRSSQASR 678
Cdd:pfam16203 241 KDRKGGVR 248
|
|
| DEXHc_XPB |
cd18029 |
DEXH-box helicase domain of TFIIH XPB subunit and similar proteins; TFIIH basal transcription ... |
244-412 |
1.88e-110 |
|
DEXH-box helicase domain of TFIIH XPB subunit and similar proteins; TFIIH basal transcription factor complex helicase XPB subunit (also known as DNA excision repair protein ERCC-3 or TFIIH 89 kDa subunit) is the ATP-dependent 3'-5' DNA helicase component of the core-TFIIH basal transcription factor, involved in nucleotide excision repair (NER) of DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. XPB 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: 350787 [Multi-domain] Cd Length: 169 Bit Score: 331.57 E-value: 1.88e-110
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 244 IDLKPTAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTAACTVRKRCLVLGNSAVSVEQWKAQFKMWSTIDDS 323
Cdd:cd18029 1 IDLKPSTQLRPYQEKALSKMFGNGRARSGVIVLPCGAGKTLVGITAACTIKKSTLVLCTSAVSVEQWRRQFLDWTTIDDE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 324 QICRFTSDAKDKPIGCSVAISTYSMLGHTTKRSWEAERVMEWLKTQEWGLMILDEVHTIPAKMFRRVLTIVQAHCKLGLT 403
Cdd:cd18029 81 QIGRFTSDKKEIFPEAGVTVSTYSMLANTRKRSPESEKFMEFITEREWGLIILDEVHVVPAPMFRRVLTLQKAHCKLGLT 160
|
....*....
gi 742068541 404 ATLVREDDK 412
Cdd:cd18029 161 ATLVREDDK 169
|
|
| SSL2 |
COG1061 |
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair]; |
252-663 |
4.24e-65 |
|
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
Pssm-ID: 440681 [Multi-domain] Cd Length: 566 Bit Score: 226.06 E-value: 4.24e-65
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 252 LRPYQEKSLRKMFGNGRA--RSGVIVLPCGAGKSLVGVTAACTVR--KRCLVLGNSAVSVEQWKAQFKMWSTIDDSqicr 327
Cdd:COG1061 81 LRPYQQEALEALLAALERggGRGLVVAPTGTGKTVLALALAAELLrgKRVLVLVPRRELLEQWAEELRRFLGDPLA---- 156
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 328 ftsDAKDKPIGCSVAISTYSMLGHttkrsweaeRVMEWLKTQEWGLMILDEVHTIPAKMFRRVLTIVQAHCKLGLTATLV 407
Cdd:COG1061 157 ---GGGKKDSDAPITVATYQSLAR---------RAHLDELGDRFGLVIIDEAHHAGAPSYRRILEAFPAAYRLGLTATPF 224
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 408 REDDKIVDLNFLIGpKLYEANWMELQNNGYIAKVQCAEVWCPMSPEFyREYVAIKTKKRILLYTMNPNKFRACQFLIKFH 487
Cdd:COG1061 225 RSDGREILLFLFDG-IVYEYSLKEAIEDGYLAPPEYYGIRVDLTDER-AEYDALSERLREALAADAERKDKILRELLREH 302
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 488 eRRNDKIIVFADNVFALKEYAIRLNK-----PYIYGPTSQGERMQILQNFKHNpKINTIFISKVGDTSFDLPEANVLIQI 562
Cdd:COG1061 303 -PDDRKTLVFCSSVDHAEALAELLNEagiraAVVTGDTPKKEREEILEAFRDG-ELRILVTVDVLNEGVDVPRLDVAILL 380
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 563 SSHgGSRRQEAQRLGRVLRAKKGmvaEEYnAFFYSLVSQDTQEMAYSTKRQRFLVDQGYSFKVITKLAGMEEEDLAFSTK 642
Cdd:COG1061 381 RPT-GSPREFIQRLGRGLRPAPG---KED-ALVYDFVGNDVPVLEELAKDLRDLAGYRVEFLDEEESEELALLIAVKPAL 455
|
410 420
....*....|....*....|.
gi 742068541 643 EEQQQLLQKVLAATDLDAEEE 663
Cdd:COG1061 456 EVKGELEEELLEELELLEDAL 476
|
|
| DEXDc |
smart00487 |
DEAD-like helicases superfamily; |
244-418 |
3.87e-17 |
|
DEAD-like helicases superfamily;
Pssm-ID: 214692 [Multi-domain] Cd Length: 201 Bit Score: 80.23 E-value: 3.87e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 244 IDLKPTAVLRPYQEKSLRKMFGNGRarSGVIVLPCGAGKSLVGVTAA-----CTVRKRCLVLGNSAVSVEQWKAQFKMWS 318
Cdd:smart00487 1 IEKFGFEPLRPYQKEAIEALLSGLR--DVILAAPTGSGKTLAALLPAlealkRGKGGRVLVLVPTRELAEQWAEELKKLG 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 319 T-IDDSQICRFTSDAKDKPI------GCSVAISTYSMLGHTTKRsweaervmEWLKTQEWGLMILDEVHTIPAKMFRRVL 391
Cdd:smart00487 79 PsLGLKVVGLYGGDSKREQLrklesgKTDILVTTPGRLLDLLEN--------DKLSLSNVDLVILDEAHRLLDGGFGDQL 150
|
170 180 190
....*....|....*....|....*....|..
gi 742068541 392 TIV-----QAHCKLGLTATLVREDDKIVDLNF 418
Cdd:smart00487 151 EKLlkllpKNVQLLLLSATPPEEIENLLELFL 182
|
|
| uvsW |
PHA02558 |
UvsW helicase; Provisional |
253-507 |
9.80e-04 |
|
UvsW helicase; Provisional
Pssm-ID: 222875 [Multi-domain] Cd Length: 501 Bit Score: 42.30 E-value: 9.80e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 253 RPYQEKSLRKMFGNGRarsGVIVLPCGAGKSLVgvtAACTVR-------KRCLVLGNSAVSVEQWKAQFKMWSTIDDS-- 323
Cdd:PHA02558 116 HWYQYDAVYEGLKNNR---RLLNLPTSAGKSLI---QYLLSRyylenyeGKVLIIVPTTSLVTQMIDDFVDYRLFPREam 189
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 324 -QICRFTSDAKDKPIgcsvAISTYSMLGHTTKrsweaervmEWLktQEWGLMILDEVHTIPAKMFRRVLTIVqAHC--KL 400
Cdd:PHA02558 190 hKIYSGTAKDTDAPI----VVSTWQSAVKQPK---------EWF--DQFGMVIVDECHLFTGKSLTSIITKL-DNCkfKF 253
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 401 GLTATLVREDDKIVDLNFLIGP--KLYEANwmELQNNGYIAKVQCAEVWCPMSPEFyreyvaiktkkRILLytmnpnKFR 478
Cdd:PHA02558 254 GLTGSLRDGKANILQYVGLFGDifKPVTTS--QLMEEGQVTDLKINSIFLRYPDED-----------RVKL------KGE 314
|
250 260 270
....*....|....*....|....*....|....*....
gi 742068541 479 ACQFLIKF---HERRNDKIIVFA-------DNVFALKEY 507
Cdd:PHA02558 315 DYQEEIKYitsHTKRNKWIANLAlklakkgENTFVMFKY 353
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| rad25 |
TIGR00603 |
DNA repair helicase rad25; All proteins in this family for which functions are known are ... |
1-715 |
0e+00 |
|
DNA repair helicase rad25; All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273168 [Multi-domain] Cd Length: 732 Bit Score: 1377.19 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 1 MPLKDDHTSRPLWVAPDGHIFLEAFSPVYKYAQDFLVAIAEPVCRPTHVHEYKLTAYSLYAAVSVGLQTSDITEYLRKLS 80
Cdd:TIGR00603 6 LELKPDHGSRPLWVAPDGHIFLESFSPLYKQAQDFLVAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETEDIIEVLGRLS 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 81 KTGVPDGIMQFIKLCTVSYGKVKLVLKHNRYFVESCHPDVIQHLLQDPVIRECRLRNSEGEatELITETFTSKSAISKTA 160
Cdd:TIGR00603 86 KTPIPKGIIEFIRLCTQSYGKVKLVLKHNRYFVESPHPEVLQRLLKDPVIAPCRIDPTEEE--SLQTPTYGSKEDFIINK 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 161 ES-SGGPSTSRVTDPQGKSDIPMDLFDFYEQMDKDEEEEEETQTVSFEVKQEMIEELQKRCIHLEYPLLAEYDFRNDSVN 239
Cdd:TIGR00603 164 PGfTGGASAGQLEANQGESAVPKDIADFYELEEEEEDEDEETATHSFEIDQEQVEEVKKRCIELDYPLLEEYDFRNDTVN 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 240 PDINIDLKPTAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTAACTVRKRCLVLGNSAVSVEQWKAQFKMWST 319
Cdd:TIGR00603 244 PDLNIDLKPTTQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTVKKSCLVLCTSAVSVEQWKQQFKMWST 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 320 IDDSQICRFTSDAKDKPIG-CSVAISTYSMLGHTTKRSWEAERVMEWLKTQEWGLMILDEVHTIPAKMFRRVLTIVQAHC 398
Cdd:TIGR00603 324 IDDSQICRFTSDAKERFHGeAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVPAAMFRRVLTIVQAHC 403
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 399 KLGLTATLVREDDKIVDLNFLIGPKLYEANWMELQNNGYIAKVQCAEVWCPMSPEFYREYVAIKTKKRILLYTMNPNKFR 478
Cdd:TIGR00603 404 KLGLTATLVREDDKITDLNFLIGPKLYEANWMELQKKGFIANVQCAEVWCPMTPEFYREYLRENSRKRMLLYVMNPNKFR 483
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 479 ACQFLIKFHERRNDKIIVFADNVFALKEYAIRLNKPYIYGPTSQGERMQILQNFKHNPKINTIFISKVGDTSFDLPEANV 558
Cdd:TIGR00603 484 ACQFLIRFHEQRGDKIIVFSDNVFALKEYAIKLGKPFIYGPTSQQERMQILQNFQHNPKVNTIFLSKVGDTSIDLPEANV 563
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 559 LIQISSHGGSRRQEAQRLGRVLRAKKGMVAEEYNAFFYSLVSQDTQEMAYSTKRQRFLVDQGYSFKVITKLAGMEEE-DL 637
Cdd:TIGR00603 564 LIQISSHYGSRRQEAQRLGRILRAKKGSDAEEYNAFFYSLVSKDTQEMYYSTKRQRFLVDQGYSFKVITHLPGMDNEsNL 643
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 638 AFSTKEEQQQLLQKVLAATDLDAEEEVVAGEFGSR-----------SSQASRRFGTMSSMSGADDTVYMEYHSSRSKAPS 706
Cdd:TIGR00603 644 AYSSKEEQLELLQKVLLAGDLDAELEVLEGEFGSRalgasrsmssaSGKAVRRGGSLSSLSGGDDMAYMEYRKPAIKKSK 723
|
....*....
gi 742068541 707 KHVHPLFKR 715
Cdd:TIGR00603 724 KEVHPLFKK 732
|
|
| ERCC3_RAD25_C |
pfam16203 |
ERCC3/RAD25/XPB C-terminal helicase; This is the C-terminal helicase domain of ERCC3, RAD25 ... |
432-678 |
0e+00 |
|
ERCC3/RAD25/XPB C-terminal helicase; This is the C-terminal helicase domain of ERCC3, RAD25 and XPB helicases.
Pssm-ID: 406585 Cd Length: 248 Bit Score: 531.02 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 432 LQNNGYIAKVQCAEVWCPMSPEFYREYVAIKTKKRILLYTMNPNKFRACQFLIKFHERRNDKIIVFADNVFALKEYAIRL 511
Cdd:pfam16203 1 LQEKGHIANVQCAEVWCPMTAEFYREYLRSKSRKKRLLYVMNPNKFRACQFLIRYHERRGDKIIVFSDNVFALKEYAKKL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 512 NKPYIYGPTSQGERMQILQNFKHNPKINTIFISKVGDTSFDLPEANVLIQISSHGGSRRQEAQRLGRVLRAKKGMVAEEY 591
Cdd:pfam16203 81 NKPYIYGGTSQAERMRILQNFKHNPNVNTIFLSKVGDTSIDLPEANVLIQISSHFGSRRQEAQRLGRILRAKRRSNDEGF 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 592 NAFFYSLVSQDTQEMAYSTKRQRFLVDQGYSFKVITKLAGMEE-EDLAFSTKEEQQQLLQKVLAATDLDAEEEVVAGEFG 670
Cdd:pfam16203 161 NAFFYSLVSKDTQEMYYSTKRQQFLVDQGYAFKVITNLAGMEDeENLAYSTKEEQLELLQKVLAANDTDAEEEVIADDLG 240
|
....*...
gi 742068541 671 SRSSQASR 678
Cdd:pfam16203 241 KDRKGGVR 248
|
|
| DEXHc_XPB |
cd18029 |
DEXH-box helicase domain of TFIIH XPB subunit and similar proteins; TFIIH basal transcription ... |
244-412 |
1.88e-110 |
|
DEXH-box helicase domain of TFIIH XPB subunit and similar proteins; TFIIH basal transcription factor complex helicase XPB subunit (also known as DNA excision repair protein ERCC-3 or TFIIH 89 kDa subunit) is the ATP-dependent 3'-5' DNA helicase component of the core-TFIIH basal transcription factor, involved in nucleotide excision repair (NER) of DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. XPB 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: 350787 [Multi-domain] Cd Length: 169 Bit Score: 331.57 E-value: 1.88e-110
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 244 IDLKPTAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTAACTVRKRCLVLGNSAVSVEQWKAQFKMWSTIDDS 323
Cdd:cd18029 1 IDLKPSTQLRPYQEKALSKMFGNGRARSGVIVLPCGAGKTLVGITAACTIKKSTLVLCTSAVSVEQWRRQFLDWTTIDDE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 324 QICRFTSDAKDKPIGCSVAISTYSMLGHTTKRSWEAERVMEWLKTQEWGLMILDEVHTIPAKMFRRVLTIVQAHCKLGLT 403
Cdd:cd18029 81 QIGRFTSDKKEIFPEAGVTVSTYSMLANTRKRSPESEKFMEFITEREWGLIILDEVHVVPAPMFRRVLTLQKAHCKLGLT 160
|
....*....
gi 742068541 404 ATLVREDDK 412
Cdd:cd18029 161 ATLVREDDK 169
|
|
| SF2_C_XPB |
cd18789 |
C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex ... |
443-599 |
2.44e-88 |
|
C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex helicase XPB (xeroderma pigmentosum type B) subunit (also known as DNA excision repair protein ERCC-3 or TFIIH 89 kDa subunit) is the ATP-dependent 3'-5' DNA helicase component of the core-TFIIH basal transcription factor, involved in nucleotide excision repair (NER) of DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. XPB is a DEAD-like helicase 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: 350176 [Multi-domain] Cd Length: 153 Bit Score: 273.36 E-value: 2.44e-88
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 443 CAEVWCPMSPEFYREY-VAIKTKKRILLYTMNPNKFRACQFLIKFHERrNDKIIVFADNVFALKEYAIRLNKPYIYGPTS 521
Cdd:cd18789 1 CAEIRCPMTPEFYREYlGLGAHRKRRLLAAMNPNKLRALEELLKRHEQ-GDKIIVFTDNVEALYRYAKRLLKPFITGETP 79
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 742068541 522 QGERMQILQNFKHNPkINTIFISKVGDTSFDLPEANVLIQISSHGGSRRQEAQRLGRVLRAKKGMvaeEYNAFFYSLV 599
Cdd:cd18789 80 QSEREEILQNFREGE-YNTLVVSKVGDEGIDLPEANVAIQISGHGGSRRQEAQRLGRILRPKKGG---GKNAFFYSLV 153
|
|
| SSL2 |
COG1061 |
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair]; |
252-663 |
4.24e-65 |
|
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
Pssm-ID: 440681 [Multi-domain] Cd Length: 566 Bit Score: 226.06 E-value: 4.24e-65
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 252 LRPYQEKSLRKMFGNGRA--RSGVIVLPCGAGKSLVGVTAACTVR--KRCLVLGNSAVSVEQWKAQFKMWSTIDDSqicr 327
Cdd:COG1061 81 LRPYQQEALEALLAALERggGRGLVVAPTGTGKTVLALALAAELLrgKRVLVLVPRRELLEQWAEELRRFLGDPLA---- 156
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 328 ftsDAKDKPIGCSVAISTYSMLGHttkrsweaeRVMEWLKTQEWGLMILDEVHTIPAKMFRRVLTIVQAHCKLGLTATLV 407
Cdd:COG1061 157 ---GGGKKDSDAPITVATYQSLAR---------RAHLDELGDRFGLVIIDEAHHAGAPSYRRILEAFPAAYRLGLTATPF 224
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 408 REDDKIVDLNFLIGpKLYEANWMELQNNGYIAKVQCAEVWCPMSPEFyREYVAIKTKKRILLYTMNPNKFRACQFLIKFH 487
Cdd:COG1061 225 RSDGREILLFLFDG-IVYEYSLKEAIEDGYLAPPEYYGIRVDLTDER-AEYDALSERLREALAADAERKDKILRELLREH 302
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 488 eRRNDKIIVFADNVFALKEYAIRLNK-----PYIYGPTSQGERMQILQNFKHNpKINTIFISKVGDTSFDLPEANVLIQI 562
Cdd:COG1061 303 -PDDRKTLVFCSSVDHAEALAELLNEagiraAVVTGDTPKKEREEILEAFRDG-ELRILVTVDVLNEGVDVPRLDVAILL 380
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 563 SSHgGSRRQEAQRLGRVLRAKKGmvaEEYnAFFYSLVSQDTQEMAYSTKRQRFLVDQGYSFKVITKLAGMEEEDLAFSTK 642
Cdd:COG1061 381 RPT-GSPREFIQRLGRGLRPAPG---KED-ALVYDFVGNDVPVLEELAKDLRDLAGYRVEFLDEEESEELALLIAVKPAL 455
|
410 420
....*....|....*....|.
gi 742068541 643 EEQQQLLQKVLAATDLDAEEE 663
Cdd:COG1061 456 EVKGELEEELLEELELLEDAL 476
|
|
| Helicase_C_3 |
pfam13625 |
Helicase conserved C-terminal domain; This domain family is found in a wide variety of ... |
12-136 |
1.84e-47 |
|
Helicase conserved C-terminal domain; This domain family is found in a wide variety of helicases and helicase-related proteins.
Pssm-ID: 463939 [Multi-domain] Cd Length: 121 Bit Score: 163.44 E-value: 1.84e-47
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 12 LWVAPDGHIFLEAfsPVYKYAQDFLVAIAEPVCRpTHVHEYKLTAYSLYAAVSVGLQTSDITEYLRKLSKTGVPDGIMQF 91
Cdd:pfam13625 1 LIVQADLTILLPG--PLAPEARDFLAAFAELESR-GHAHTYRLTPLSLRRALDAGLTAEDILDFLERHSKYPVPQALEYL 77
|
90 100 110 120
....*....|....*....|....*....|....*....|....*
gi 742068541 92 IKLCTVSYGKVKLVLkHNRYFVESCHPDVIQHLLQDPVIRECRLR 136
Cdd:pfam13625 78 IRDVARRHGRLRLGL-GASSYLRSDDPAVLAELLADPRIAPLGLR 121
|
|
| DEXHc_RE |
cd17926 |
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family ... |
252-406 |
1.18e-44 |
|
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: 156.70 E-value: 1.18e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 252 LRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTAACTVRK-RCLVLGNSAVSVEQWKAQFKMWSTidDSQICRFTS 330
Cdd:cd17926 1 LRPYQEEALEAWLAHKNNRRGILVLPTGSGKTLTALALIAYLKElRTLIVVPTDALLDQWKERFEDFLG--DSSIGLIGG 78
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 742068541 331 DAKDKPIGCSVAISTYSmlghttKRSWEAERVMewLKTQEWGLMILDEVHTIPAKMFRRVLTIVQAHCKLGLTATL 406
Cdd:cd17926 79 GKKKDFDDANVVVATYQ------SLSNLAEEEK--DLFDQFGLLIVDEAHHLPAKTFSEILKELNAKYRLGLTATP 146
|
|
| DEXDc |
smart00487 |
DEAD-like helicases superfamily; |
244-418 |
3.87e-17 |
|
DEAD-like helicases superfamily;
Pssm-ID: 214692 [Multi-domain] Cd Length: 201 Bit Score: 80.23 E-value: 3.87e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 244 IDLKPTAVLRPYQEKSLRKMFGNGRarSGVIVLPCGAGKSLVGVTAA-----CTVRKRCLVLGNSAVSVEQWKAQFKMWS 318
Cdd:smart00487 1 IEKFGFEPLRPYQKEAIEALLSGLR--DVILAAPTGSGKTLAALLPAlealkRGKGGRVLVLVPTRELAEQWAEELKKLG 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 319 T-IDDSQICRFTSDAKDKPI------GCSVAISTYSMLGHTTKRsweaervmEWLKTQEWGLMILDEVHTIPAKMFRRVL 391
Cdd:smart00487 79 PsLGLKVVGLYGGDSKREQLrklesgKTDILVTTPGRLLDLLEN--------DKLSLSNVDLVILDEAHRLLDGGFGDQL 150
|
170 180 190
....*....|....*....|....*....|..
gi 742068541 392 TIV-----QAHCKLGLTATLVREDDKIVDLNF 418
Cdd:smart00487 151 EKLlkllpKNVQLLLLSATPPEEIENLLELFL 182
|
|
| ResIII |
pfam04851 |
Type III restriction enzyme, res subunit; |
251-408 |
2.12e-15 |
|
Type III restriction enzyme, res subunit;
Pssm-ID: 398492 [Multi-domain] Cd Length: 162 Bit Score: 74.25 E-value: 2.12e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 251 VLRPYQE---KSLRKMFGNGRARsGVIVLPCGAGKSLVGVTAACTVRK-----RCLVLGNSAVSVEQWKAQFKMWsTIDD 322
Cdd:pfam04851 3 ELRPYQIeaiENLLESIKNGQKR-GLIVMATGSGKTLTAAKLIARLFKkgpikKVLFLVPRKDLLEQALEEFKKF-LPNY 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 323 SQICRFTSDAKDKPI--GCSVAISTYSMLGHttkrswEAERVMEWLKTQEWGLMILDEVHTIPAKMFRRVLTIVQAHCKL 400
Cdd:pfam04851 81 VEIGEIISGDKKDESvdDNKIVVTTIQSLYK------ALELASLELLPDFFDVIIIDEAHRSGASSYRNILEYFKPAFLL 154
|
....*...
gi 742068541 401 GLTATLVR 408
Cdd:pfam04851 155 GLTATPER 162
|
|
| DEXHc_Snf |
cd17919 |
DEXH/Q-box helicase domain of DEAD-like helicase Snf family proteins; Sucrose Non-Fermenting ... |
252-405 |
1.93e-12 |
|
DEXH/Q-box helicase domain of DEAD-like helicase Snf family proteins; Sucrose Non-Fermenting (SNF) proteins DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350677 [Multi-domain] Cd Length: 182 Bit Score: 66.44 E-value: 1.93e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 252 LRPYQEKSLRKMFGNGRARSGVIVLPC-GAGKSLVGVTAACTVRK------RCLVLGNSAVsVEQWKAQFKMWS------ 318
Cdd:cd17919 1 LRPYQLEGLNFLLELYENGPGGILADEmGLGKTLQAIAFLAYLLKegkergPVLVVCPLSV-LENWEREFEKWTpdlrvv 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 319 TIDDSQICRFTSDAKDKPIGCSVAISTYSMLghttkrsweaERVMEWLKTQEWGLMILDEVHTI---PAKMFRRVLTIvQ 395
Cdd:cd17919 80 VYHGSQRERAQIRAKEKLDKFDVVLTTYETL----------RRDKASLRKFRWDLVVVDEAHRLknpKSQLSKALKAL-R 148
|
170
....*....|
gi 742068541 396 AHCKLGLTAT 405
Cdd:cd17919 149 AKRRLLLTGT 158
|
|
| HepA |
COG0553 |
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, ... |
249-560 |
3.27e-12 |
|
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, and repair];
Pssm-ID: 440319 [Multi-domain] Cd Length: 682 Bit Score: 69.87 E-value: 3.27e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 249 TAVLRPYQEKSLRKMFGNGRARSGVI----VlpcGAGKSLVGVTAACTVR-----KRCLVLGNSAVsVEQWKAQFKmwst 319
Cdd:COG0553 239 KATLRPYQLEGAAWLLFLRRLGLGGLladdM---GLGKTIQALALLLELKerglaRPVLIVAPTSL-VGNWQRELA---- 310
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 320 iddsqicRFTSD-------------AKDKPIG-CSVAISTYSMLGhttkrsweaeRVMEWLKTQEWGLMILDEVHTI--- 382
Cdd:COG0553 311 -------KFAPGlrvlvldgtreraKGANPFEdADLVITSYGLLR----------RDIELLAAVDWDLVILDEAQHIknp 373
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 383 PAKMFRRVLTIvQAHCKLGLTATLV--REDD-----KIVDLNFLIGPKLYEANWMELQNNGYIA---------------- 439
Cdd:COG0553 374 ATKRAKAVRAL-KARHRLALTGTPVenRLEElwsllDFLNPGLLGSLKAFRERFARPIEKGDEEalerlrrllrpfllrr 452
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 440 -KVQCAE---------VWCPMSPE---FYREYVA-----------IKTKKRIL--------------LYTMNPN------ 475
Cdd:COG0553 453 tKEDVLKdlpekteetLYVELTPEqraLYEAVLEylrrelegaegIRRRGLILaaltrlrqicshpaLLLEEGAelsgrs 532
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 476 -KFRACQFLIKFHERRNDKIIVFADnvFA---------LKEYAIRLnkPYIYGPTSQGERMQILQNFKHNPKINTIFIS- 544
Cdd:COG0553 533 aKLEALLELLEELLAEGEKVLVFSQ--FTdtldlleerLEERGIEY--AYLHGGTSAEERDELVDRFQEGPEAPVFLISl 608
|
410
....*....|....*.
gi 742068541 545 KVGDTSFDLPEANVLI 560
Cdd:COG0553 609 KAGGEGLNLTAADHVI 624
|
|
| Helicase_C |
pfam00271 |
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ... |
475-583 |
6.11e-12 |
|
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: 62.61 E-value: 6.11e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 475 NKFRACQFLIKFHerRNDKIIVFADNVFALKEYAIRLNKPY----IYGPTSQGERMQILQNFKhNPKINTIFISKVGDTS 550
Cdd:pfam00271 1 EKLEALLELLKKE--RGGKVLIFSQTKKTLEAELLLEKEGIkvarLHGDLSQEEREEILEDFR-KGKIDVLVATDVAERG 77
|
90 100 110
....*....|....*....|....*....|...
gi 742068541 551 FDLPEANVLIQISSHgGSRRQEAQRLGRVLRAK 583
Cdd:pfam00271 78 LDLPDVDLVINYDLP-WNPASYIQRIGRAGRAG 109
|
|
| HELICc |
smart00490 |
helicase superfamily c-terminal domain; |
515-583 |
1.41e-10 |
|
helicase superfamily c-terminal domain;
Pssm-ID: 197757 [Multi-domain] Cd Length: 82 Bit Score: 57.99 E-value: 1.41e-10
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 742068541 515 YIYGPTSQGERMQILQNFKhNPKINTIFISKVGDTSFDLPEANVLIQISSHgGSRRQEAQRLGRVLRAK 583
Cdd:smart00490 16 RLHGGLSQEEREEILDKFN-NGKIKVLVATDVAERGLDLPGVDLVIIYDLP-WSPASYIQRIGRAGRAG 82
|
|
| DEXHc_RE_I_III_res |
cd18032 |
DEXH-box helicase domain of type III restriction enzyme res subunit; Members of this model ... |
252-412 |
1.65e-09 |
|
DEXH-box helicase domain of type III restriction enzyme res subunit; Members of this model includes both type I and type III restriction enzymes. Both are hetero-oligomeric proteins. Type I REs are encoded by three closely linked genes: a specificity subunit (HsdS or S) for recognizing a DNA sequence, a methylation subunit (HsdM or M) for methylating the recognized target bases, and a restriction subunit (HsdR or R) for the translocation and random cleavage of non-methylated DNA. They show diverse catalytic activities, including methyltransferase (MTase), ATP hydrolase (ATPase), DNA translocation and restriction activities. These enzymes cut at a site that differs, and is a random distance (at least 1000 bp) away, from their recognition site. Cleavage at these random sites follows a process of DNA translocation, which shows that these enzymes are also molecular motors. The recognition site is asymmetrical and is composed of two specific portions: one containing 3-4 nucleotides, and another containing 4-5 nucleotides, separated by a non-specific spacer of about 6-8 nucleotides. Type III enzymes are composed of two subunits, Res and Mod. The Mod subunit recognizes the DNA sequence specific for the system and is a modification methyltransferase; as such, it is functionally equivalent to the M and S subunits of type I restriction endonucleases. Res is required for restriction, although it has no enzymatic activity on its own. Type III enzymes recognize short 5-6 bp-long asymmetric DNA sequences and cleave 25-27 bp downstream to leave short, single-stranded 5' protrusions. They require the presence of two inversely oriented unmethylated recognition sites for restriction to occur. These enzymes methylate only one strand of the DNA, at the N-6 position of adenosyl residues, so newly replicated DNA will have only one strand methylated, which is sufficient to protect against restriction. Both type I and type III REs 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: 350790 [Multi-domain] Cd Length: 163 Bit Score: 57.19 E-value: 1.65e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 252 LRPYQEKSLRKM---FGNGRARSGViVLPCGAGKSlvgVTAACTVR--------KRCLVLGNSAVSVEQWKAQFkmWSTI 320
Cdd:cd18032 1 PRYYQQEAIEALeeaREKGQRRALL-VMATGTGKT---YTAAFLIKrlleanrkKRILFLAHREELLEQAERSF--KEVL 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 321 DDSQICRFTSDaKDKPIGCSVAISTYSmlghttkrSWEAERVMEWLKTQEWGLMILDEVHTIPAKMFRRVLtivqAHCK- 399
Cdd:cd18032 75 PDGSFGNLKGG-KKKPDDARVVFATVQ--------TLNKRKRLEKFPPDYFDLIIIDEAHHAIASSYRKIL----EYFEp 141
|
170
....*....|....*.
gi 742068541 400 ---LGLTATLVREDDK 412
Cdd:cd18032 142 aflLGLTATPERTDGL 157
|
|
| DEXHc_ERCC6L2 |
cd18005 |
DEXH-box helicase domain of ERCC6L2; ERCC excision repair 6 like 2 (ERCC6L2, also known as ... |
290-410 |
8.42e-06 |
|
DEXH-box helicase domain of ERCC6L2; ERCC excision repair 6 like 2 (ERCC6L2, also known as RAD26L) may play a role in DNA repair and mitochondrial function. In humans, mutations in the ERCC6L2 gene are associated with bone marrow failure syndrome 2. ERCC6L2 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: 350763 [Multi-domain] Cd Length: 245 Bit Score: 47.76 E-value: 8.42e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 290 ACTVRKRCLVLGNSAVsVEQWKAQFKMWSTIDDSQicrFTSDAKD-------KPIGCSVAISTYSMLghttkrsweaERV 362
Cdd:cd18005 66 ASSAKKPVLIVAPLSV-LYNWKDELDTWGHFEVGV---YHGSRKDdelegrlKAGRLEVVVTTYDTL----------RRC 131
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|
gi 742068541 363 MEWLKTQEWGLMILDEVHTI--PAKMFRRVLTIVQAHCKLGLTATLVRED 410
Cdd:cd18005 132 IDSLNSINWSAVIADEAHRIknPKSKLTQAMKELKCKVRIGLTGTLLQNN 181
|
|
| SF2_C_SNF |
cd18793 |
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ... |
476-581 |
1.46e-05 |
|
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) family includes chromatin-remodeling factors, such as CHD proteins and SMARCA proteins, recombination proteins Rad54, and many others. 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: 350180 [Multi-domain] Cd Length: 135 Bit Score: 45.16 E-value: 1.46e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 476 KFRACQFLIKFHERRNDKIIVFA---DNVFALKEYAIRLNKPY--IYGPTSQGERMQILQNFKHNPKINTIFIS-KVGDT 549
Cdd:cd18793 12 KLEALLELLEELREPGEKVLIFSqftDTLDILEEALRERGIKYlrLDGSTSSKERQKLVDRFNEDPDIRVFLLStKAGGV 91
|
90 100 110 120
....*....|....*....|....*....|....*....|
gi 742068541 550 SFDLPEANVLI--------QIsshggsrrqEAQRLGRVLR 581
Cdd:cd18793 92 GLNLTAANRVIlydpwwnpAV---------EEQAIDRAHR 122
|
|
| DEXHc_Ski2 |
cd17921 |
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ... |
254-382 |
4.02e-05 |
|
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: 44.95 E-value: 4.02e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 254 PYQEKSLRKMFGNGRarSGVIVLPCGAGKSLVGVTAA----CTVRKRCLVLGNSAVSVEQWKAQFKMWSTIDDSQICRFT 329
Cdd:cd17921 4 PIQREALRALYLSGD--SVLVSAPTSSGKTLIAELAIlralATSGGKAVYIAPTRALVNQKEADLRERFGPLGKNVGLLT 81
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*.
gi 742068541 330 SD---AKDKPIGCSVAISTYSMLGHTTKRSWEaervmewLKTQEWGLMILDEVHTI 382
Cdd:cd17921 82 GDpsvNKLLLAEADILVATPEKLDLLLRNGGE-------RLIQDVRLVVVDEAHLI 130
|
|
| SF2-N |
cd00046 |
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ... |
272-405 |
2.72e-04 |
|
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: 41.62 E-value: 2.72e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 272 GVIVLPCGAGKSLVGVTAA-----CTVRKRCLVLGNSAVsVEQWKAQFKMWSTID--------DSQIC-RFTSDAKDKPI 337
Cdd:cd00046 4 VLITAPTGSGKTLAALLAAlllllKKGKKVLVLVPTKAL-ALQTAERLRELFGPGirvavlvgGSSAEeREKNKLGDADI 82
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 742068541 338 gcsvAISTYSMLGhttkRSWEAERvmeWLKTQEWGLMILDEVHTIPAKMfRRVLTIVQAHCKL--------GLTAT 405
Cdd:cd00046 83 ----IIATPDMLL----NLLLRED---RLFLKDLKLIIVDEAHALLIDS-RGALILDLAVRKAglknaqviLLSAT 146
|
|
| uvsW |
PHA02558 |
UvsW helicase; Provisional |
253-507 |
9.80e-04 |
|
UvsW helicase; Provisional
Pssm-ID: 222875 [Multi-domain] Cd Length: 501 Bit Score: 42.30 E-value: 9.80e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 253 RPYQEKSLRKMFGNGRarsGVIVLPCGAGKSLVgvtAACTVR-------KRCLVLGNSAVSVEQWKAQFKMWSTIDDS-- 323
Cdd:PHA02558 116 HWYQYDAVYEGLKNNR---RLLNLPTSAGKSLI---QYLLSRyylenyeGKVLIIVPTTSLVTQMIDDFVDYRLFPREam 189
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 324 -QICRFTSDAKDKPIgcsvAISTYSMLGHTTKrsweaervmEWLktQEWGLMILDEVHTIPAKMFRRVLTIVqAHC--KL 400
Cdd:PHA02558 190 hKIYSGTAKDTDAPI----VVSTWQSAVKQPK---------EWF--DQFGMVIVDECHLFTGKSLTSIITKL-DNCkfKF 253
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 401 GLTATLVREDDKIVDLNFLIGP--KLYEANwmELQNNGYIAKVQCAEVWCPMSPEFyreyvaiktkkRILLytmnpnKFR 478
Cdd:PHA02558 254 GLTGSLRDGKANILQYVGLFGDifKPVTTS--QLMEEGQVTDLKINSIFLRYPDED-----------RVKL------KGE 314
|
250 260 270
....*....|....*....|....*....|....*....
gi 742068541 479 ACQFLIKF---HERRNDKIIVFA-------DNVFALKEY 507
Cdd:PHA02558 315 DYQEEIKYitsHTKRNKWIANLAlklakkgENTFVMFKY 353
|
|
| SF2_C |
cd18785 |
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ... |
492-596 |
1.35e-03 |
|
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases include DEAD-box helicases, UvrB, RecG, Ski2, Sucrose Non-Fermenting (SNF) family helicases, and dicer proteins, among others. Similar to SF1 helicases, they do not form toroidal structures like SF3-6 helicases. SF2 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: 350172 [Multi-domain] Cd Length: 77 Bit Score: 38.07 E-value: 1.35e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 492 DKIIVFADNVFALKEYAirlnkpyiygptsqgERMQILqnfkhnpkINTifisKVGDTSFDLPEANVLIQISSHGgSRRQ 571
Cdd:cd18785 4 VKIIVFTNSIEHAEEIA---------------SSLEIL--------VAT----NVLGEGIDVPSLDTVIFFDPPS-SAAS 55
|
90 100
....*....|....*....|....*
gi 742068541 572 EAQRLGRVLRAKKgmvaEEYNAFFY 596
Cdd:cd18785 56 YIQRVGRAGRGGK----DEGEVILF 76
|
|
| MPH1 |
COG1111 |
ERCC4-related helicase [Replication, recombination and repair]; |
488-674 |
2.32e-03 |
|
ERCC4-related helicase [Replication, recombination and repair];
Pssm-ID: 440728 [Multi-domain] Cd Length: 718 Bit Score: 41.25 E-value: 2.32e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 488 ERRNDKIIVFA---DNVFALKEYairLNKPYI-----------YGPT--SQGERMQILQNFKhNPKINTIFISKVGDTSF 551
Cdd:COG1111 350 TNPDSRIIVFTqyrDTAEMIVEF---LSEPGIkagrfvgqaskEGDKglTQKEQIEILERFR-AGEFNVLVATSVAEEGL 425
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742068541 552 DLPEANVLI-------QISShggsrrqeAQRLGRVLRAKKGMVaeeynaffYSLVSQDTQEMAY---STKRQRFLVDQGY 621
Cdd:COG1111 426 DIPEVDLVIfyepvpsEIRS--------IQRKGRTGRKREGRV--------VVLIAKGTRDEAYywsSRRKEKKMKSILK 489
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 742068541 622 sfkvitKLAGMEEEDLAFSTKEEQQQLLQKVLAATDLDAEEEVVAGEFGSRSS 674
Cdd:COG1111 490 ------KLKKLLDKQEKEKLKESAQATLDEFESIKELAEDEINEKDLDEIESS 536
|
|
| Cas3 |
COG1203 |
CRISPR-Cas type I system-associated endonuclease/helicase Cas3 [Defense mechanisms]; ... |
375-406 |
3.96e-03 |
|
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: 40.45 E-value: 3.96e-03
10 20 30
....*....|....*....|....*....|....*..
gi 742068541 375 ILDEVHTIPAKMFRRVLTIVQAHCKLG-----LTATL 406
Cdd:COG1203 273 ILDEVQAYPPYMLALLLRLLEWLKNLGgsvilMTATL 309
|
|
| |
