|
Name |
Accession |
Description |
Interval |
E-value |
| recQ |
TIGR01389 |
ATP-dependent DNA helicase RecQ; The ATP-dependent DNA helicase RecQ of E. coli is about 600 ... |
5-588 |
0e+00 |
|
ATP-dependent DNA helicase RecQ; The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273594 [Multi-domain] Cd Length: 591 Bit Score: 1016.54 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 5 IFNILKKYFGYSSFRRGQENIIQSILDGNDTFAIMPTGGGKSICYQVPALYMKGLTIVITPLISLMKDQVDTLRENGVNA 84
Cdd:TIGR01389 1 AQQVLKRTFGYDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALLLKGLTVVISPLISLMKDQVDQLRAAGVAA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 85 SYINSTLSSKETNDILMSALSGHLKILYVAPERLEQDYFRNAIKDLTISMVAIDEAHCVSQWGHDFRVSYKRIVPFINIF 164
Cdd:TIGR01389 81 AYLNSTLSAKEQQDIEKALVNGELKLLYVAPERLEQDYFLNMLQRIPIALVAVDEAHCVSQWGHDFRPEYQRLGSLAERF 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 165 DKRPiVAAFTATATDEVKKDIINLLELKEPNCFITGFDRDNLFFSIVKNENKFDFITKYLSKHKELSGIIYAATRKEVDS 244
Cdd:TIGR01389 161 PQVP-RIALTATADAETRQDIRELLRLADANEFITSFDRPNLRFSVVKKNNKQKFLLDYLKKHRGQSGIIYASSRKKVEE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 245 LHQKLISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNAFGMGIDKSNVRFVIHYNMPKNLESYYQEAGRAGRDG 324
Cdd:TIGR01389 240 LAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDG 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 325 EKSECIILFSGQDIQIQKFLIKQSIPSFDRQRIELKKLNDMINYCMTTSCLRKYILNYFGENyEVENCDNCINCTGNVEI 404
Cdd:TIGR01389 320 LPAEAILLYSPADIALLKRRIEQSEADDDYKQIEREKLRAMIAYCETQTCRRAYILRYFGEN-EVEPCGNCDNCLDPPKS 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 405 VDITLEAQKIISCIYRMGQNFGVTMIAEVLKGSKNSKVLRFNFDKLSTYGIMKDCTLKQITNLINTLIADGYLYLSD--- 481
Cdd:TIGR01389 399 YDATVEAQKALSCVYRMGQRFGVGYIIEVLRGSKNDKILQKGHDQLSTYGIGKDYTQKEWRSLIDQLIAEGLLTENDeiy 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 482 ----SEYATVKMSQKSIEVLKGYKKVVQKIH--IVEELSLSTDNTLFEILKALRLEIARRENVPPYIIFSDSVLSEMCKY 555
Cdd:TIGR01389 479 iglqLTEAARKVLKNEVEVLLRPFKVVAKEKtrVQKNLSVGVDNALFEALRELRKEQADEQNVPPYVIFSDSTLREMAEK 558
|
570 580 590
....*....|....*....|....*....|...
gi 499268582 556 YPKDKNSMLQIKGVGEIKYNKYGEIFEEKIREY 588
Cdd:TIGR01389 559 RPATLNALLKIKGVGQNKLDRYGEAFLEVIREY 591
|
|
| RecQ |
COG0514 |
Superfamily II DNA helicase RecQ [Replication, recombination and repair]; |
1-474 |
0e+00 |
|
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
Pssm-ID: 440280 [Multi-domain] Cd Length: 489 Bit Score: 768.92 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 1 MDKNIFNILKKYFGYSSFRRGQENIIQSILDGNDTFAIMPTGGGKSICYQVPALYMKGLTIVITPLISLMKDQVDTLREN 80
Cdd:COG0514 1 LRDDALEVLKRVFGYDSFRPGQEEIIEAVLAGRDALVVMPTGGGKSLCYQLPALLLPGLTLVVSPLIALMKDQVDALRAA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 81 GVNASYINSTLSSKETNDILMSALSGHLKILYVAPERLEQDYFRNAIKDLTISMVAIDEAHCVSQWGHDFRVSYKRIVPF 160
Cdd:COG0514 81 GIRAAFLNSSLSAEERREVLRALRAGELKLLYVAPERLLNPRFLELLRRLKISLFAIDEAHCISQWGHDFRPDYRRLGEL 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 161 INIFDKRPIVaAFTATATDEVKKDIINLLELKEPNCFITGFDRDNLFFSIVK--NENKFDFITKYLSKHKELSGIIYAAT 238
Cdd:COG0514 161 RERLPNVPVL-ALTATATPRVRADIAEQLGLEDPRVFVGSFDRPNLRLEVVPkpPDDKLAQLLDFLKEHPGGSGIVYCLS 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 239 RKEVDSLHQKLISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNAFGMGIDKSNVRFVIHYNMPKNLESYYQEAG 318
Cdd:COG0514 240 RKKVEELAEWLREAGIRAAAYHAGLDAEEREANQDRFLRDEVDVIVATIAFGMGIDKPDVRFVIHYDLPKSIEAYYQEIG 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 319 RAGRDGEKSECIILFSGQDIQIQKFLIKQSIPSFDRQRIELKKLNDMINYCMTTSCLRKYILNYFGENYEvENCDNCINC 398
Cdd:COG0514 320 RAGRDGLPAEALLLYGPEDVAIQRFFIEQSPPDEERKRVERAKLDAMLAYAETTGCRRQFLLRYFGEELA-EPCGNCDNC 398
|
410 420 430 440 450 460 470
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 499268582 399 TGNVEIVDITLEAQKIISCIYRMGQNFGVTMIAEVLKGSKNSKVLRFNFDKLSTYGIMKDCTLKQITNLINTLIAD 474
Cdd:COG0514 399 LGPPETFDGTEAAQKALSCVYRTGQRFGAGHVIDVLRGSKNEKIRQFGHDKLSTYGIGKDLSDKEWRSVIRQLLAQ 474
|
|
| PRK11057 |
PRK11057 |
ATP-dependent DNA helicase RecQ; Provisional |
8-589 |
0e+00 |
|
ATP-dependent DNA helicase RecQ; Provisional
Pssm-ID: 182933 [Multi-domain] Cd Length: 607 Bit Score: 559.33 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 8 ILKKYFGYSSFRRGQENIIQSILDGNDTFAIMPTGGGKSICYQVPALYMKGLTIVITPLISLMKDQVDTLRENGVNASYI 87
Cdd:PRK11057 16 VLQETFGYQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVLDGLTLVVSPLISLMKDQVDQLLANGVAAACL 95
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 88 NSTLSSKETNDILMSALSGHLKILYVAPERLEQDYFRNAIKDLTISMVAIDEAHCVSQWGHDFRVSYKRIVPFINIFDKR 167
Cdd:PRK11057 96 NSTQTREQQLEVMAGCRTGQIKLLYIAPERLMMDNFLEHLAHWNPALLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTL 175
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 168 PIVaAFTATATDEVKKDIINLLELKEPNCFITGFDRDNLFFSIVKNENKFDFITKYLSKHKELSGIIYAATRKEVDSLHQ 247
Cdd:PRK11057 176 PFM-ALTATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYTLVEKFKPLDQLMRYVQEQRGKSGIIYCNSRAKVEDTAA 254
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 248 KLISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNAFGMGIDKSNVRFVIHYNMPKNLESYYQEAGRAGRDGEKS 327
Cdd:PRK11057 255 RLQSRGISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPA 334
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 328 ECIILFSGQDIQIQKFLIKQSiPSFDRQRIELKKLNDMINYCMTTSCLRKYILNYFGENYEvENCDNCINCTGNVEIVDI 407
Cdd:PRK11057 335 EAMLFYDPADMAWLRRCLEEK-PAGQQQDIERHKLNAMGAFAEAQTCRRLVLLNYFGEGRQ-EPCGNCDICLDPPKQYDG 412
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 408 TLEAQKIISCIYRMGQNFGVTMIAEVLKGSKNSKVLRFNFDKLSTYGIMKDCTLKQITNLINTLIADGYLYLSDSEYATV 487
Cdd:PRK11057 413 LEDAQKALSCIYRVNQRFGMGYVVEVLRGANNQRIRDYGHDKLKVYGIGRDKSHEHWVSVIRQLIHLGLVTQNIAQHSAL 492
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 488 KMSQKSIEVLKGykKVVQKIHIVEELSLST-----------DNTLFEILKALRLEIARRENVPPYIIFSDSVLSEMCKYY 556
Cdd:PRK11057 493 QLTEAARPVLRG--EVSLQLAVPRIVALKPramqksfggnyDRKLFAKLRKLRKSIADEENIPPYVVFNDATLIEMAEQM 570
|
570 580 590
....*....|....*....|....*....|...
gi 499268582 557 PKDKNSMLQIKGVGEIKYNKYGEIFEEKIREYI 589
Cdd:PRK11057 571 PITASEMLSVNGVGQRKLERFGKPFMALIRAHV 603
|
|
| recQ_fam |
TIGR00614 |
ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are ... |
7-458 |
9.60e-158 |
|
ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are known are 3'-5' DNA-DNA helicases. These proteins are used for recombination, recombinational repair, and possibly maintenance of chromosome stability. 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: 129701 [Multi-domain] Cd Length: 470 Bit Score: 464.63 E-value: 9.60e-158
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 7 NILKKYFGYSSFRRGQENIIQSILDGNDTFAIMPTGGGKSICYQVPALYMKGLTIVITPLISLMKDQVDTLRENGVNASY 86
Cdd:TIGR00614 1 KILKKYFGLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALYSDGITLVISPLISLMEDQVLQLQALGIPATF 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 87 INSTLSSKETNDILMSALSGHLKILYVAPERL--EQDYFRNAIKDLTISMVAIDEAHCVSQWGHDFRVSYKRIVPFINIF 164
Cdd:TIGR00614 81 LNSAQTKEQQLNVLTDLKDGKIKLLYVTPEKIsaSNRLLQTLEERKGITLIAVDEAHCISQWGHDFRPDYKALGSLKQKF 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 165 DKRPIVaAFTATATDEVKKDIINLLELKEPNCFITGFDRDNLFFSIVKNENKFDF-ITKYLSKHKE-LSGIIYAATRKEV 242
Cdd:TIGR00614 161 PNVPVM-ALTATASPSVREDILRQLNLLNPQIFCTSFDRPNLYYEVRRKTPKILEdLLRFIRKEFEgKSGIIYCPSRKKV 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 243 DSLHQKLISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNAFGMGIDKSNVRFVIHYNMPKNLESYYQEAGRAGR 322
Cdd:TIGR00614 240 EQVAAELQKLGLAAGAYHAGLEDSARDDVQHKFQRDEIQVVVATVAFGMGINKPDVRFVIHYSLPKSMESYYQESGRAGR 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 323 DGEKSECIILFSGQDIQIQKFLIKQsIPSFDRQRIELKKLNDMINYCMTTSCLRKYILNYFGEN---------YEVENCD 393
Cdd:TIGR00614 320 DGLPSECHLFYAPADMNRLRRLLME-EPDGNFRTYKLKLYEMMEYCLNSSTCRRLILLSYFGEKgfnksfcimGTEKCCD 398
|
410 420 430 440 450 460 470
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 499268582 394 NC----INCTGNVE--IVDITLEAQKIISCIYRMGQNFGVTMIAEVLKGSKNSKVLRFNFDKLSTYGIMKD 458
Cdd:TIGR00614 399 NCckrlDYKTKDVTdkVYDFGPQAQKALSAVGRLNQKFGMGYPVDFLRGSNSQKIRDGGFRKHSLYGRGKD 469
|
|
| PLN03137 |
PLN03137 |
ATP-dependent DNA helicase; Q4-like; Provisional |
10-603 |
6.83e-103 |
|
ATP-dependent DNA helicase; Q4-like; Provisional
Pssm-ID: 215597 [Multi-domain] Cd Length: 1195 Bit Score: 341.11 E-value: 6.83e-103
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 10 KKYFGYSSFRRGQENIIQSILDGNDTFAIMPTGGGKSICYQVPALYMKGLTIVITPLISLMKDQVDTLRENGVNASYINS 89
Cdd:PLN03137 453 KKVFGNHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQLPALICPGITLVISPLVSLIQDQIMNLLQANIPAASLSA 532
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 90 TLSSKETNDILMSALSGH--LKILYVAPERL-EQDYFRNAIKDLT----ISMVAIDEAHCVSQWGHDFRVSYKRIVPFIN 162
Cdd:PLN03137 533 GMEWAEQLEILQELSSEYskYKLLYVTPEKVaKSDSLLRHLENLNsrglLARFVIDEAHCVSQWGHDFRPDYQGLGILKQ 612
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 163 IFDKRPiVAAFTATATDEVKKDIINLLELKEPNCFITGFDRDNLFFSIVKNENK-FDFITKYLSK-HKELSGIIYAATRK 240
Cdd:PLN03137 613 KFPNIP-VLALTATATASVKEDVVQALGLVNCVVFRQSFNRPNLWYSVVPKTKKcLEDIDKFIKEnHFDECGIIYCLSRM 691
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 241 EVDSLHQKLISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNAFGMGIDKSNVRFVIHYNMPKNLESYYQEAGRA 320
Cdd:PLN03137 692 DCEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGRA 771
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 321 GRDGEKSECIILFSGQDIQIQKFLIKQSI-------PSFDRQ----RI---ELKKLNDMINYCMT-TSCLRKYILNYFGE 385
Cdd:PLN03137 772 GRDGQRSSCVLYYSYSDYIRVKHMISQGGveqspmaMGYNRMassgRIletNTENLLRMVSYCENeVDCRRFLQLVHFGE 851
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 386 NYEVENCDN-CINCTGNVEIV--DITLEAQKIISCIYRMGQNFGVTMIAEVLKGSKNSKVLRFNFDKLSTYGIMKDCTLK 462
Cdd:PLN03137 852 KFDSTNCKKtCDNCSSSKSLIdkDVTEIARQLVELVKLTGERFSSAHILEVYRGSLNQYVKKHRHETLSLHGAGKHLSKG 931
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 463 QITNLINTLIADGYL---------YLSDSEYATVKMSqKSIEVLKGYKKVVQKI-------------------------- 507
Cdd:PLN03137 932 EASRILHYLVTEDILaedvkksdlYGSVSSLLKVNES-KAYKLFSGGQTIIMRFpssvkaskpskfeatpakgpltsgkq 1010
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 508 ---------HIVEELSLSTdnTLFEILKALRLEIARR--ENVPPYIIFSDSVLSEMCKYYPKDKNSMLQIKGVGEIKYNK 576
Cdd:PLN03137 1011 stlpmatpaQPPVDLNLSA--ILYTALRKLRTALVKEagDGVMAYHIFGNATLQQISKRIPRTKEELLEINGLGKAKVSK 1088
|
650 660 670
....*....|....*....|....*....|.
gi 499268582 577 YG----EIFEEKIREYIKeTNLTPEDNNKGT 603
Cdd:PLN03137 1089 YGdrllETIESTINEYYK-TDKNSSSSNDSP 1118
|
|
| DEXHc_RecQ |
cd17920 |
DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box ... |
8-202 |
1.81e-97 |
|
DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box helicase superfamily is a family of highly conserved DNA repair helicases. This domain contains the ATP-binding region.
Pssm-ID: 350678 [Multi-domain] Cd Length: 200 Bit Score: 299.06 E-value: 1.81e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 8 ILKKYFGYSSFRRGQENIIQSILDGNDTFAIMPTGGGKSICYQVPALYMKGLTIVITPLISLMKDQVDTLRENGVNASYI 87
Cdd:cd17920 3 ILKEVFGYDEFRPGQLEAINAVLAGRDVLVVMPTGGGKSLCYQLPALLLDGVTLVVSPLISLMQDQVDRLQQLGIRAAAL 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 88 NSTLSSKETNDILMSALSGHLKILYVAPERLEQDYFRNAIKDLT----ISMVAIDEAHCVSQWGHDFRVSYKRIVPFINI 163
Cdd:cd17920 83 NSTLSPEEKREVLLRIKNGQYKLLYVTPERLLSPDFLELLQRLPerkrLALIVVDEAHCVSQWGHDFRPDYLRLGRLRRA 162
|
170 180 190
....*....|....*....|....*....|....*....
gi 499268582 164 FDKRPIVaAFTATATDEVKKDIINLLELKEPNCFITGFD 202
Cdd:cd17920 163 LPGVPIL-ALTATATPEVREDILKRLGLRNPVIFRASFD 200
|
|
| DEXHc_RecQ4-like |
cd18018 |
DEAH-box helicase domain of RecQ4 and similar proteins; ATP-dependent DNA helicase Q4 (RecQ4) ... |
6-193 |
2.19e-68 |
|
DEAH-box helicase domain of RecQ4 and similar proteins; ATP-dependent DNA helicase Q4 (RecQ4) is part of the RecQ family of highly conserved DNA repair helicases that is part of 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. Mutations cause Rothmund-Thomson/RAPADILINO/Baller-Gerold syndrome.
Pssm-ID: 350776 [Multi-domain] Cd Length: 201 Bit Score: 222.90 E-value: 2.19e-68
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 6 FNILKKYFGYSSFRRGQENIIQSILDGNDTFAIMPTGGGKSICYQVPALYMK----GLTIVITPLISLMKDQVDTLREnG 81
Cdd:cd18018 1 LKLLRRVFGHPSFRPGQEEAIARLLSGRSTLVVLPTGAGKSLCYQLPALLLRrrgpGLTLVVSPLIALMKDQVDALPR-A 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 82 VNASYINSTLSSKETNDILMSALSGHLKILYVAPERLEQDYFRNAIKDL-TISMVAIDEAHCVSQWGHDFRVSYKRIVPF 160
Cdd:cd18018 80 IKAAALNSSLTREERRRILEKLRAGEVKILYVSPERLVNESFRELLRQTpPISLLVVDEAHCISEWSHNFRPDYLRLCRV 159
|
170 180 190
....*....|....*....|....*....|...
gi 499268582 161 INIFDKRPIVAAFTATATDEVKKDIINLLELKE 193
Cdd:cd18018 160 LRELLGAPPVLALTATATKRVVEDIASHLGIPE 192
|
|
| DEXHc_RecQ3 |
cd18017 |
DEAH-box helicase domain of RecQ3; DEAD-like helicase RecQ3 (also called Werner syndrome ... |
7-202 |
9.25e-59 |
|
DEAH-box helicase domain of RecQ3; DEAD-like helicase RecQ3 (also called Werner syndrome ATP-dependent helicase or WRN) is part of the RecQ family of highly conserved DNA repair helicases that is part of 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. Mutations cause Werner's syndrome.
Pssm-ID: 350775 [Multi-domain] Cd Length: 193 Bit Score: 196.92 E-value: 9.25e-59
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 7 NILKKYFGYSSFRRGQENIIQSIL-DGNDTFAIMPTGGGKSICYQVPALYMKGLTIVITPLISLMKDQVDTLRENGVNAS 85
Cdd:cd18017 2 NALNEYFGHSSFRPVQWKVIRSVLeERRDNLVVMATGYGKSLCYQYPSVLLNSLTLVISPLISLMEDQVLQLVMSNIPAC 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 86 YINSTLSSKETNDILMsalsGHLKILYVAPERLEQDYFRNAIKDLTISMVAIDEAHCVSQWGHDFRVSYKRIVPFINIFD 165
Cdd:cd18017 82 FLGSAQSQNVLDDIKM----GKIRVIYVTPEFVSKGLELLQQLRNGITLIAIDEAHCVSQWGHDFRSSYRHLGSIRNRLP 157
|
170 180 190
....*....|....*....|....*....|....*..
gi 499268582 166 KRPIVaAFTATATDEVKKDIINLLELKEPNCFITGFD 202
Cdd:cd18017 158 NVPIV-ALTATATPSVRDDIIKNLNLRNPQITCTSFD 193
|
|
| DEXHc_RecQ1 |
cd18015 |
DEXH-box helicase domain of RecQ1; ATP-dependent DNA helicase Q1 (RecQ1) is part of the RecQ ... |
2-202 |
7.13e-58 |
|
DEXH-box helicase domain of RecQ1; ATP-dependent DNA helicase Q1 (RecQ1) is part of the RecQ family of highly conserved DNA repair helicases that is part of 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: 350773 [Multi-domain] Cd Length: 209 Bit Score: 195.28 E-value: 7.13e-58
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 2 DKNIFNILKKYFGYSSFRRGQENIIQSILDGNDTFAIMPTGGGKSICYQVPALYMKGLTIVITPLISLMKDQVDTLRENG 81
Cdd:cd18015 3 SGKVKDTLKNVFKLEKFRPLQLETINATMAGRDVFLVMPTGGGKSLCYQLPALCSDGFTLVVSPLISLMEDQLMALKKLG 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 82 VNASYINSTlSSKETNDILMSAL---SGHLKILYVAPERLEQD-YFRNAIKDL----TISMVAIDEAHCVSQWGHDFRVS 153
Cdd:cd18015 83 ISATMLNAS-SSKEHVKWVHAALtdkNSELKLLYVTPEKIAKSkRFMSKLEKAynagRLARIAIDEVHCCSQWGHDFRPD 161
|
170 180 190 200
....*....|....*....|....*....|....*....|....*....
gi 499268582 154 YKRIVPFINIFDKRPIVaAFTATATDEVKKDIINLLELKEPNCFITGFD 202
Cdd:cd18015 162 YKKLGILKRQFPNVPIL-GLTATATSKVLKDVQKILCIQKCLTFTASFN 209
|
|
| DEXHc_RecQ2_BLM |
cd18016 |
DEAH-box helicase domain of RecQ2; ATP-dependent DNA helicase Q2 (RecQ2, also called Bloom ... |
1-202 |
5.29e-54 |
|
DEAH-box helicase domain of RecQ2; ATP-dependent DNA helicase Q2 (RecQ2, also called Bloom syndrome protein homolog or BLM) is part of the RecQ family of highly conserved DNA repair helicases that is part of 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. Mutations in RecQ2 cause Bloom syndrome.
Pssm-ID: 350774 [Multi-domain] Cd Length: 208 Bit Score: 184.65 E-value: 5.29e-54
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 1 MDKNIFNILKKYFGYSSFRRGQENIIQSILDGNDTFAIMPTGGGKSICYQVPALYMKGLTIVITPLISLMKDQVDTLREN 80
Cdd:cd18016 1 HSKEMMKIFHKKFGLHQFRTNQLEAINAALLGEDCFVLMPTGGGKSLCYQLPACVSPGVTVVISPLRSLIVDQVQKLTSL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 81 GVNASYINSTLSSKETNDILMSALSGH--LKILYVAPERLE-----QDYFRNAIKDLTISMVAIDEAHCVSQWGHDFRVS 153
Cdd:cd18016 81 DIPATYLTGDKTDAEATKIYLQLSKKDpiIKLLYVTPEKISasnrlISTLENLYERKLLARFVIDEAHCVSQWGHDFRPD 160
|
170 180 190 200
....*....|....*....|....*....|....*....|....*....
gi 499268582 154 YKRIVPFINIFDKRPIVaAFTATATDEVKKDIINLLELKEPNCFITGFD 202
Cdd:cd18016 161 YKRLNMLRQKFPSVPMM-ALTATATPRVQKDILNQLKMLRPQVFTMSFN 208
|
|
| SF2_C_RecQ |
cd18794 |
C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an ... |
203-333 |
1.00e-52 |
|
C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an evolutionarily conserved class of enzymes, dedicated to preserving genomic integrity by operating in telomere maintenance, DNA repair, and replication. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.
Pssm-ID: 350181 [Multi-domain] Cd Length: 134 Bit Score: 178.17 E-value: 1.00e-52
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 203 RDNLFFSIV---KNENKFDFITKYLSKHKELSGIIYAATRKEVDSLHQKLISQGYSVGKYHAGMGDKERSESQDLFLYDE 279
Cdd:cd18794 1 RPNLFYSVRpkdKKDEKLDLLKRIKVEHLGGSGIIYCLSRKECEQVAARLQSKGISAAAYHAGLEPSDRRDVQRKWLRDK 80
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....
gi 499268582 280 TKLMIATNAFGMGIDKSNVRFVIHYNMPKNLESYYQEAGRAGRDGEKSECIILF 333
Cdd:cd18794 81 IQVIVATVAFGMGIDKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECILFY 134
|
|
| DEXHc_RecQ5 |
cd18014 |
DEAH-box helicase domain of RecQ5; ATP-dependent DNA helicase Q5 (RecQ5) is part of the RecQ ... |
7-194 |
1.76e-50 |
|
DEAH-box helicase domain of RecQ5; ATP-dependent DNA helicase Q5 (RecQ5) is part of the RecQ family of highly conserved DNA repair helicases that is part of 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: 350772 [Multi-domain] Cd Length: 205 Bit Score: 174.97 E-value: 1.76e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 7 NILKKYFGYSSFRRG-QENIIQSILDGN-DTFAIMPTGGGKSICYQVPALYMKGLTIVITPLISLMKDQVDTLRENGVNA 84
Cdd:cd18014 2 STLKKVFGHSDFKSPlQEKATMAVVKGNkDVFVCMPTGAGKSLCYQLPALLAKGITIVISPLIALIQDQVDHLKTLKIRV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 85 SYINSTLSSKETNDILM--SALSGHLKILYVAPERLE----QDYFRNAIKDLTISMVAIDEAHCVSQWGHDFRVSYKRIV 158
Cdd:cd18014 82 DSLNSKLSAQERKRIIAdlESEKPQTKFLYITPEMAAtssfQPLLSSLVSRNLLSYLVVDEAHCVSQWGHDFRPDYLRLG 161
|
170 180 190
....*....|....*....|....*....|....*.
gi 499268582 159 PFINIFDKRPIVaAFTATATDEVKKDIINLLELKEP 194
Cdd:cd18014 162 ALRSRYGHVPWV-ALTATATPQVQEDIFAQLRLKKP 196
|
|
| DpdF |
NF041063 |
protein DpdF; |
8-340 |
6.58e-43 |
|
protein DpdF;
Pssm-ID: 468990 [Multi-domain] Cd Length: 813 Bit Score: 166.63 E-value: 6.58e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 8 ILKKYFGYSSFR-RGQENIIQSIL---DGNDTFAIMPTGGGKSICYQVPALYMK---GLTIVITPLISLMKDQ----VDT 76
Cdd:NF041063 130 FLAEALGFTHYRsPGQREAVRAALlapPGSTLIVNLPTGSGKSLVAQAPALLASrqgGLTLVVVPTVALAIDQerraREL 209
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 77 LRENGVNA----SYInSTLSSKETNDILMSALSGHLKILYVAPE----RLeqdyfRNAIKDL----TISMVAIDEAHCVS 144
Cdd:NF041063 210 LRRAGPDLggplAWH-GGLSAEERAAIRQRIRDGTQRILFTSPEsltgSL-----RPALFDAaeagLLRYLVVDEAHLVD 283
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 145 QWGHDFRVSYKRIVPFI-NIFDKRPIVAAF-----TATATDEV------------KKDIINLLELK-EPNCFITGFDRDn 205
Cdd:NF041063 284 QWGDGFRPEFQLLAGLRrSLLRLAPSGRPFrtlllSATLTESTldtletlfgppgPFIVVSAVQLRpEPAYWVAKCDSE- 362
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 206 lffsivknENKFDFITKYLSkH--KELsgIIYAATRKEVDSLHQKLISQGYS-VGKYHAGMGDKERSESQDLFLYDETKL 282
Cdd:NF041063 363 --------EERRERVLEALR-HlpRPL--ILYVTKVEDAEAWLQRLRAAGFRrVALFHGDTPDAERERLIEQWRENELDI 431
|
330 340 350 360 370
....*....|....*....|....*....|....*....|....*....|....*...
gi 499268582 283 MIATNAFGMGIDKSNVRFVIHYNMPKNLESYYQEAGRAGRDGEKSECIILFSGQDIQI 340
Cdd:NF041063 432 VVATSAFGLGMDKSDVRTVIHACVPETLDRFYQEVGRGGRDGKASLSLLIYTPDDLDI 489
|
|
| RQC |
pfam09382 |
RQC domain; This DNA-binding domain is found in the RecQ helicase among others and has a ... |
402-507 |
7.97e-38 |
|
RQC domain; This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure. The RQC domain, found only in RecQ family enzymes, is a high affinity G4 DNA binding domain.
Pssm-ID: 462780 [Multi-domain] Cd Length: 108 Bit Score: 136.13 E-value: 7.97e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 402 VEIVDITLEAQKIISCIYRMGQNFGVTMIAEVLKGSKNSKVLRFNFDKLSTYGIMKDCTLKQITNLINTLIADGYLYLSD 481
Cdd:pfam09382 2 PETVDVTEEAQKILSCVYRTGQRFGAGHLIDVLRGSKNKKIRQLGHDKLSTFGIGKDLSKKEWRRIIRQLIAEGYLEVDI 81
|
90 100
....*....|....*....|....*.
gi 499268582 482 SEYATVKMSQKSIEVLKGYKKVVQKI 507
Cdd:pfam09382 82 EFYSVLKLTPKAREVLKGEEKVMLRV 107
|
|
| RQC |
smart00956 |
This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix ... |
406-497 |
5.10e-35 |
|
This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; The RQC domain, found only in RecQ family enzymes, is a high affinity G4 DNA binding domain.
Pssm-ID: 214936 [Multi-domain] Cd Length: 92 Bit Score: 127.59 E-value: 5.10e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 406 DITLEAQKIISCIYRMGQNFGVTMIAEVLKGSKNSKVLRFNFDKLSTYGIMKDCTLKQITNLINTLIADGYLYLSDSEYA 485
Cdd:smart00956 1 DVTEEAQKLLSCVYRTGQRFGAGHVIDVLRGSKNKKIRQKGHDRLSTFGIGKDLSKKEWRRLIRQLIAEGYLREDGGRYP 80
|
90
....*....|..
gi 499268582 486 TVKMSQKSIEVL 497
Cdd:smart00956 81 YLKLTEKARPVL 92
|
|
| DEAD |
pfam00270 |
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ... |
19-183 |
1.20e-27 |
|
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.
Pssm-ID: 425570 [Multi-domain] Cd Length: 165 Bit Score: 109.64 E-value: 1.20e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 19 RRGQENIIQSILDGNDTFAIMPTGGGKSICYQVPALYM------KGLTIVITPLISLMKDQVDTLRENGVNASY-INSTL 91
Cdd:pfam00270 1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEAldkldnGPQALVLAPTRELAEQIYEELKKLGKGLGLkVASLL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 92 SSKETNDILmsALSGHLKILYVAPERLeQDYFRNAIKDLTISMVAIDEAHCVSQWGhdFRVSYKRIvpfINIFDKRPIVA 171
Cdd:pfam00270 81 GGDSRKEQL--EKLKGPDILVGTPGRL-LDLLQERKLLKNLKLLVLDEAHRLLDMG--FGPDLEEI---LRRLPKKRQIL 152
|
170
....*....|..
gi 499268582 172 AFTATATDEVKK 183
Cdd:pfam00270 153 LLSATLPRNLED 164
|
|
| HTH_40 |
pfam14493 |
Helix-turn-helix domain; This presumed domain is found at the C-terminus of a large number of ... |
616-704 |
9.59e-27 |
|
Helix-turn-helix domain; This presumed domain is found at the C-terminus of a large number of helicase proteins.
Pssm-ID: 464189 Cd Length: 89 Bit Score: 104.13 E-value: 9.59e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 616 THIETFNLYKKGITIADMAKIRNLSIPTIQEHILKCANEGLNVNLDAYIPAEYKDLIYEKIRILGTSKLRPIKDALPDDV 695
Cdd:pfam14493 1 SAEITLELYKEGLSIEEIAEERGLKESTIEGHLAELIEAGEPVDIERLVSEEEQKEILDAIEKLGSESLKPIKEALPEEI 80
|
....*....
gi 499268582 696 DYMAIKAAI 704
Cdd:pfam14493 81 SYFEIRLVL 89
|
|
| RecQ_Zn_bind |
pfam16124 |
RecQ zinc-binding; This domain is the zinc-binding domain of ATP-dependent DNA helicase RecQ. |
336-399 |
9.25e-24 |
|
RecQ zinc-binding; This domain is the zinc-binding domain of ATP-dependent DNA helicase RecQ.
Pssm-ID: 465031 [Multi-domain] Cd Length: 66 Bit Score: 95.05 E-value: 9.25e-24
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 499268582 336 QDIQIQKFLIKQSIPSFDRQRIELKKLNDMINYCMTTS-CLRKYILNYFGENYEVENCDNCINCT 399
Cdd:pfam16124 2 QDVVRLRFLIEQSEADEERKEVELQKLQAMVAYCENTTdCRRKQLLRYFGEEFDSEPCGNCDNCL 66
|
|
| Helicase_C |
pfam00271 |
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ... |
215-324 |
4.96e-23 |
|
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: 94.20 E-value: 4.96e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 215 NKFDFITKYLSKHKELSGIIYAATRKEVDsLHQKLISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNAFGMGID 294
Cdd:pfam00271 1 EKLEALLELLKKERGGKVLIFSQTKKTLE-AELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGLD 79
|
90 100 110
....*....|....*....|....*....|
gi 499268582 295 KSNVRFVIHYNMPKNLESYYQEAGRAGRDG 324
Cdd:pfam00271 80 LPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
|
|
| HELICc |
smart00490 |
helicase superfamily c-terminal domain; |
243-324 |
2.11e-22 |
|
helicase superfamily c-terminal domain;
Pssm-ID: 197757 [Multi-domain] Cd Length: 82 Bit Score: 91.50 E-value: 2.11e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 243 DSLHQKLISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNAFGMGIDKSNVRFVIHYNMPKNLESYYQEAGRAGR 322
Cdd:smart00490 1 EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGR 80
|
..
gi 499268582 323 DG 324
Cdd:smart00490 81 AG 82
|
|
| DEXDc |
smart00487 |
DEAD-like helicases superfamily; |
11-191 |
8.96e-22 |
|
DEAD-like helicases superfamily;
Pssm-ID: 214692 [Multi-domain] Cd Length: 201 Bit Score: 93.71 E-value: 8.96e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 11 KYFGYSSFRRGQENIIQSILDGN-DTFAIMPTGGGKSICYQVPALY-----MKGLTIVITPLISLMKDQVDTLRENGVNA 84
Cdd:smart00487 2 EKFGFEPLRPYQKEAIEALLSGLrDVILAAPTGSGKTLAALLPALEalkrgKGGRVLVLVPTRELAEQWAEELKKLGPSL 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 85 SYINSTL-SSKETNDILMSALSGHLKILYVAPERLEQDYFRNAIKDLTISMVAIDEAHCVSQWGhdFRVSYKRIVPFINi 163
Cdd:smart00487 82 GLKVVGLyGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDKLSLSNVDLVILDEAHRLLDGG--FGDQLEKLLKLLP- 158
|
170 180
....*....|....*....|....*...
gi 499268582 164 fdKRPIVAAFTATATDEVKKDIINLLEL 191
Cdd:smart00487 159 --KNVQLLLLSATPPEEIENLLELFLND 184
|
|
| SF2_C_DEAD |
cd18787 |
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ... |
210-333 |
8.60e-20 |
|
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, 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: 350174 [Multi-domain] Cd Length: 131 Bit Score: 85.64 E-value: 8.60e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 210 IVKNENKFD-FITKYLSKHKELSGIIYAATRKEVDSLHQKLISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNA 288
Cdd:cd18787 7 VVEEEEKKLlLLLLLLEKLKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVRVLVATDV 86
|
90 100 110 120
....*....|....*....|....*....|....*....|....*
gi 499268582 289 FGMGIDKSNVRFVIHYNMPKNLESYYQEAGRAGRDGEKSECIILF 333
Cdd:cd18787 87 AARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
|
|
| SrmB |
COG0513 |
Superfamily II DNA and RNA helicase [Replication, recombination and repair]; |
22-350 |
1.74e-19 |
|
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
Pssm-ID: 440279 [Multi-domain] Cd Length: 420 Bit Score: 91.36 E-value: 1.74e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 22 QENIIQSILDGNDTFAIMPTGGGKSICYQVPAL--------------------------------YMKGLTIVITPLISL 69
Cdd:COG0513 29 QAQAIPLILAGRDVLGQAQTGTGKTAAFLLPLLqrldpsrprapqalilaptrelalqvaeelrkLAKYLGLRVATVYGG 108
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 70 --MKDQVDTLReNGVnasyinstlssketnDILmsalsghlkilyVA-PERLeQDYF-RNAIKDLTISMVAIDEAhcvsq 145
Cdd:COG0513 109 vsIGRQIRALK-RGV---------------DIV------------VAtPGRL-LDLIeRGALDLSGVETLVLDEA----- 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 146 wghD------FRVSYKRIVPFInifDKRPIVAAFTATATDEVKKdiinLLE--LKEPNcFITgFDRDNL-------FFSI 210
Cdd:COG0513 155 ---DrmldmgFIEDIERILKLL---PKERQTLLFSATMPPEIRK----LAKryLKNPV-RIE-VAPENAtaetieqRYYL 222
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 211 VKNENKFDFITKYLSKHKELSGIIYAATRKEVDSLHQKLISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNAFG 290
Cdd:COG0513 223 VDKRDKLELLRRLLRDEDPERAIVFCNTKRGADRLAEKLQKRGISAAALHGDLSQGQRERALDAFRNGKIRVLVATDVAA 302
|
330 340 350 360 370 380
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 499268582 291 MGIDKSNVRFVIHYNMPKNLESYYQEAGRAGRDGEKSECIILFSGQDI----QIQKfLIKQSIP 350
Cdd:COG0513 303 RGIDIDDVSHVINYDLPEDPEDYVHRIGRTGRAGAEGTAISLVTPDERrllrAIEK-LIGQKIE 365
|
|
| HRDC |
pfam00570 |
HRDC domain; The HRDC (Helicase and RNase D C-terminal) domain has a putative role in nucleic ... |
518-581 |
2.32e-19 |
|
HRDC domain; The HRDC (Helicase and RNase D C-terminal) domain has a putative role in nucleic acid binding. Mutations in the HRDC domain cause human disease. It is interesting to note that the RecQ helicase in Deinococcus radiodurans has three tandem HRDC domains.
Pssm-ID: 425755 [Multi-domain] Cd Length: 68 Bit Score: 82.58 E-value: 2.32e-19
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 499268582 518 DNTLFEILKALRLEIARRENVPPYIIFSDSVLSEMCKYYPKDKNSMLQIKGVGEIKYNKYGEIF 581
Cdd:pfam00570 1 QLALLKALREWRDELAREEDVPPYVIFPDKTLLEIAEKLPRTLEELLAIPGVGPRKVERYGEEI 64
|
|
| HRDC |
smart00341 |
Helicase and RNase D C-terminal; Hypothetical role in nucleic acid binding. Mutations in the ... |
518-595 |
8.44e-19 |
|
Helicase and RNase D C-terminal; Hypothetical role in nucleic acid binding. Mutations in the HRDC domain cause human disease.
Pssm-ID: 128635 [Multi-domain] Cd Length: 81 Bit Score: 81.19 E-value: 8.44e-19
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 499268582 518 DNTLFEILKALRLEIARRENVPPYIIFSDSVLSEMCKYYPKDKNSMLQIKGVGEIKYNKYGEIFEEKIREYIKETNLT 595
Cdd:smart00341 4 QLRLLRRLRQWRDEIARREDVPPYFVLPDETLIKMAAALPTNVSELLAIDGVGEEKARRYGKDLLAVIQEASDSPSEA 81
|
|
| SSL2 |
COG1061 |
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair]; |
23-347 |
3.74e-15 |
|
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
Pssm-ID: 440681 [Multi-domain] Cd Length: 566 Bit Score: 78.91 E-value: 3.74e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 23 ENIIQSILDGNDTF-AIMPTGGGKSI----CYQvpALYMKGLTIVITPLISLMKDQVDTLREngVNASYINSTLSSKETN 97
Cdd:COG1061 90 EALLAALERGGGRGlVVAPTGTGKTVlalaLAA--ELLRGKRVLVLVPRRELLEQWAEELRR--FLGDPLAGGGKKDSDA 165
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 98 DIL---MSALSGHLKIlyvapERLEQDYfrnaikdltiSMVAIDEAHcvsqwgHDFRVSYKRIvpfINIFDKRPIVAaFT 174
Cdd:COG1061 166 PITvatYQSLARRAHL-----DELGDRF----------GLVIIDEAH------HAGAPSYRRI---LEAFPAAYRLG-LT 220
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 175 AT--ATDEVKKDIINLLE---------------LKEPNCFI--TGFDRDNLFFSIVK----------NENKFDFITKYLS 225
Cdd:COG1061 221 ATpfRSDGREILLFLFDGivyeyslkeaiedgyLAPPEYYGirVDLTDERAEYDALSerlrealaadAERKDKILRELLR 300
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 226 KHKELS-GIIYAATRKEVDSLHQKLISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNAFGMGIDKSNVRFVIhY 304
Cdd:COG1061 301 EHPDDRkTLVFCSSVDHAEALAELLNEAGIRAAVVTGDTPKKEREEILEAFRDGELRILVTVDVLNEGVDVPRLDVAI-L 379
|
330 340 350 360
....*....|....*....|....*....|....*....|....*.
gi 499268582 305 NMP-KNLESYYQEAGRAGRDGE-KSECIIL-FSGQDIQIQKFLIKQ 347
Cdd:COG1061 380 LRPtGSPREFIQRLGRGLRPAPgKEDALVYdFVGNDVPVLEELAKD 425
|
|
| PTZ00424 |
PTZ00424 |
helicase 45; Provisional |
162-339 |
3.47e-14 |
|
helicase 45; Provisional
Pssm-ID: 185609 [Multi-domain] Cd Length: 401 Bit Score: 75.25 E-value: 3.47e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 162 NIFDKRPI---VAAFTATATDE----------------VKKDIINLLELKEpncfitgfdrdnLFFSIVKNENKFDFITK 222
Cdd:PTZ00424 193 DVFKKLPPdvqVALFSATMPNEilelttkfmrdpkrilVKKDELTLEGIRQ------------FYVAVEKEEWKFDTLCD 260
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 223 YLSKHKELSGIIYAATRKEVDSLHQKLISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNAFGMGIDKSNVRFVI 302
Cdd:PTZ00424 261 LYETLTITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVI 340
|
170 180 190
....*....|....*....|....*....|....*..
gi 499268582 303 HYNMPKNLESYYQEAGRAGRDGEKSECIILFSGQDIQ 339
Cdd:PTZ00424 341 NYDLPASPENYIHRIGRSGRFGRKGVAINFVTPDDIE 377
|
|
| SF2-N |
cd00046 |
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ... |
32-176 |
3.53e-14 |
|
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: 70.12 E-value: 3.53e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 32 GNDTFAIMPTGGGKSICYQVPALY---MKGL-TIVITPLISLMKDQVDTLRE---NGVNASYINSTLSSKEtndiLMSAL 104
Cdd:cd00046 1 GENVLITAPTGSGKTLAALLAALLlllKKGKkVLVLVPTKALALQTAERLRElfgPGIRVAVLVGGSSAEE----REKNK 76
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 499268582 105 SGHLKILYVAPERLEQDYFRNA-IKDLTISMVAIDEAHCVSQWGHDFRVSYKRIVPFINifdKRPIVAAFTAT 176
Cdd:cd00046 77 LGDADIIIATPDMLLNLLLREDrLFLKDLKLIIVDEAHALLIDSRGALILDLAVRKAGL---KNAQVILLSAT 146
|
|
| YpbB |
COG4955 |
Uncharacterized conserved protein YpbB, contains C-terminal HTH domain [Function unknown]; |
606-701 |
9.54e-14 |
|
Uncharacterized conserved protein YpbB, contains C-terminal HTH domain [Function unknown];
Pssm-ID: 443982 [Multi-domain] Cd Length: 346 Bit Score: 73.12 E-value: 9.54e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 606 VPELLSKKIPTH--IETFNLYKKGITIADMAKIRNLSIPTIQEHILKCANEGLNVNLDAYIPAEYKDLIYEKIRILGTSK 683
Cdd:COG4955 239 LEDLLKESLLTQsaQKTYQLLQQGLSLEEIAQIRRLKLSTIEDHLVEIAIKDPDFPIEPFVNKEDQQEIIQAIEKLGTWK 318
|
90
....*....|....*...
gi 499268582 684 LRPIKDALPdDVDYMAIK 701
Cdd:COG4955 319 LKEIKEQLP-DLSYFQIR 335
|
|
| SF2_C |
cd18785 |
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ... |
276-333 |
4.88e-11 |
|
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: 59.25 E-value: 4.88e-11
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 499268582 276 LYDETKLMIATNAFGMGIDKSNVRFVIHYNMPKNLESYYQEAGRAGRDGEKSECIILF 333
Cdd:cd18785 19 IASSLEILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGRGGKDEGEVILF 76
|
|
| PLN00206 |
PLN00206 |
DEAD-box ATP-dependent RNA helicase; Provisional |
22-345 |
9.40e-11 |
|
DEAD-box ATP-dependent RNA helicase; Provisional
Pssm-ID: 215103 [Multi-domain] Cd Length: 518 Bit Score: 64.81 E-value: 9.40e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 22 QENIIQSILDGNDTFAIMPTGGGKSICYQVP-----ALYMKG--------LTIVITP---LISLMKDQvdtlrengvnAS 85
Cdd:PLN00206 148 QMQAIPAALSGRSLLVSADTGSGKTASFLVPiisrcCTIRSGhpseqrnpLAMVLTPtreLCVQVEDQ----------AK 217
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 86 YINSTLSSKETNDILMSALSGHL-------KILYVAPERLEQDYFRNAIKDLTISMVAIDEAHCVSQWGhdFRVSYKRIV 158
Cdd:PLN00206 218 VLGKGLPFKTALVVGGDAMPQQLyriqqgvELIVGTPGRLIDLLSKHDIELDNVSVLVLDEVDCMLERG--FRDQVMQIF 295
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 159 PFINifdkRPIVAAFTATATDEVKKdiinllelkepncFITGFDRDNLFFSI----------------VKNENK----FD 218
Cdd:PLN00206 296 QALS----QPQVLLFSATVSPEVEK-------------FASSLAKDIILISIgnpnrpnkavkqlaiwVETKQKkqklFD 358
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 219 FITKylSKHKELSGIIYAATRKEVDSLHQKL-ISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNAFGMGIDKSN 297
Cdd:PLN00206 359 ILKS--KQHFKPPAVVFVSSRLGADLLANAItVVTGLKALSIHGEKSMKERREVMKSFLVGEVPVIVATGVLGRGVDLLR 436
|
330 340 350 360
....*....|....*....|....*....|....*....|....*...
gi 499268582 298 VRFVIHYNMPKNLESYYQEAGRAGRDGEKSECIILFSGQDIQIQKFLI 345
Cdd:PLN00206 437 VRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVFVNEEDRNLFPELV 484
|
|
| PRK01297 |
PRK01297 |
ATP-dependent RNA helicase RhlB; Provisional |
22-337 |
3.52e-10 |
|
ATP-dependent RNA helicase RhlB; Provisional
Pssm-ID: 234938 [Multi-domain] Cd Length: 475 Bit Score: 63.01 E-value: 3.52e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 22 QENIIQSILDGNDTFAIMPTGGGKSICY---------QVPA---LYM-KGLTIVITP----LISLMKDQVDTLRENGVNa 84
Cdd:PRK01297 114 QAQVLGYTLAGHDAIGRAQTGTGKTAAFlisiinqllQTPPpkeRYMgEPRALIIAPtrelVVQIAKDAAALTKYTGLN- 192
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 85 syINSTLSSKETNDILMSALSGHLKILYVAPERLeQDYfrNAIKDLTISMV---AIDEAHCVSQWGhdFRVSYKRIVPFI 161
Cdd:PRK01297 193 --VMTFVGGMDFDKQLKQLEARFCDILVATPGRL-LDF--NQRGEVHLDMVevmVLDEADRMLDMG--FIPQVRQIIRQT 265
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 162 NIFDKRPIVAaFTATATDevkkDIINL----------LELKEPNC----------FITGFDRDNLFFSIVkNENKFDFIt 221
Cdd:PRK01297 266 PRKEERQTLL-FSATFTD----DVMNLakqwttdpaiVEIEPENVasdtveqhvyAVAGSDKYKLLYNLV-TQNPWERV- 338
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 222 kylskhkelsgIIYAATRKEVDSLHQKLISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNAFGMGIDKSNVRFV 301
Cdd:PRK01297 339 -----------MVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIHIDGISHV 407
|
330 340 350
....*....|....*....|....*....|....*.
gi 499268582 302 IHYNMPKNLESYYQEAGRAGRDGEKSECIIlFSGQD 337
Cdd:PRK01297 408 INFTLPEDPDDYVHRIGRTGRAGASGVSIS-FAGED 442
|
|
| SF2_C_Hrq |
cd18797 |
C-terminal helicase domain of HrQ family helicases; Yeast Hrq1, similar to RecQ4, plays a role ... |
220-332 |
5.87e-10 |
|
C-terminal helicase domain of HrQ family helicases; Yeast Hrq1, similar to RecQ4, plays a role in DNA inter-strand crosslink (ICL) repair and in telomere maintenance. Hrq1 lacks the Sld2-like domain found in RecQ4. HrQ family helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.
Pssm-ID: 350184 [Multi-domain] Cd Length: 146 Bit Score: 58.04 E-value: 5.87e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 220 ITKYLSKHKeLSGIIYAATRKEVDSLH-------QKLISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNAFGMG 292
Cdd:cd18797 27 LFADLVRAG-VKTIVFCRSRKLAELLLrylkarlVEEGPLASKVASYRAGYLAEDRREIEAELFNGELLGVVATNALELG 105
|
90 100 110 120
....*....|....*....|....*....|....*....|
gi 499268582 293 IDKSNVRFVIHYNMPKNLESYYQEAGRAGRDGEKSECIIL 332
Cdd:cd18797 106 IDIGGLDAVVLAGYPGSLASLWQQAGRAGRRGKDSLVILV 145
|
|
| YprA |
COG1205 |
ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, ... |
22-327 |
2.42e-09 |
|
ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, recombination and repair];
Pssm-ID: 440818 [Multi-domain] Cd Length: 758 Bit Score: 60.62 E-value: 2.42e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 22 QENIIQSILDGNDTFAIMPTGGGKSICYQVPAL--YMKGLT---IVITPLISLMKDQVDTLRE------NGVNASYINST 90
Cdd:COG1205 61 QAEAIEAARAGKNVVIATPTASGKSLAYLLPVLeaLLEDPGataLYLYPTKALARDQLRRLRElaealgLGVRVATYDGD 140
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 91 LSSKE------------TN-DILmsalsgHLKILYVAPErlEQDYFRNaikdltISMVAIDEAHcvsqwghdfrvSY--- 154
Cdd:COG1205 141 TPPEErrwirehpdivlTNpDML------HYGLLPHHTR--WARFFRN------LRYVVIDEAH-----------TYrgv 195
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 155 ------------KRIVPFiniFDKRPIVAAftATATdevkkdIINLLELKEpncfitgfdrdNLF---FSIVKN------ 213
Cdd:COG1205 196 fgshvanvlrrlRRICRH---YGSDPQFIL--ASAT------IGNPAEHAE-----------RLTgrpVTVVDEdgsprg 253
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 214 ENKFDFI----------------TKYLSKH---KELSGIIYAATRKEV----DSLHQKLISQGY--SVGKYHAGMGDKER 268
Cdd:COG1205 254 ERTFVLWnpplvddgirrsalaeAARLLADlvrEGLRTLVFTRSRRGAellaRYARRALREPDLadRVAAYRAGYLPEER 333
|
330 340 350 360 370 380
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 499268582 269 SESQDLFLYDETKLMIATNAFGMGIDKSNVRFVI--HYnmPKNLESYYQEAGRAGRDGEKS 327
Cdd:COG1205 334 REIERGLRSGELLGVVSTNALELGIDIGGLDAVVlaGY--PGTRASFWQQAGRAGRRGQDS 392
|
|
| PTZ00110 |
PTZ00110 |
helicase; Provisional |
233-362 |
3.66e-09 |
|
helicase; Provisional
Pssm-ID: 240273 [Multi-domain] Cd Length: 545 Bit Score: 59.79 E-value: 3.66e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 233 IIYAATRKEVDSLHQKLISQGYSVGKYHagmGDK---ERSESQDLFLYDETKLMIATNAFGMGIDKSNVRFVIHYNMPKN 309
Cdd:PTZ00110 381 LIFVETKKGADFLTKELRLDGWPALCIH---GDKkqeERTWVLNEFKTGKSPIMIATDVASRGLDVKDVKYVINFDFPNQ 457
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*....
gi 499268582 310 LESYYQEAGRAGRDGEKSECIILFSGQDIQIQKFLIK------QSIPSfdrqriELKKL 362
Cdd:PTZ00110 458 IEDYVHRIGRTGRAGAKGASYTFLTPDKYRLARDLVKvlreakQPVPP------ELEKL 510
|
|
| PRK11634 |
PRK11634 |
ATP-dependent RNA helicase DeaD; Provisional |
22-324 |
1.22e-07 |
|
ATP-dependent RNA helicase DeaD; Provisional
Pssm-ID: 236941 [Multi-domain] Cd Length: 629 Bit Score: 55.24 E-value: 1.22e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 22 QENIIQSILDGNDTFAIMPTGGGKSICYQVPALY-----MKGLTI-VITPLISLMKDQVDTLRE-----NGVNASyinsT 90
Cdd:PRK11634 33 QAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHnldpeLKAPQIlVLAPTRELAVQVAEAMTDfskhmRGVNVV----A 108
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 91 LSSKETNDILMSALSGHLKILYVAPERLeQDYFRNAIKDLT-ISMVAIDEAHCVSQWGhdfrvsykrivpFI----NIFD 165
Cdd:PRK11634 109 LYGGQRYDVQLRALRQGPQIVVGTPGRL-LDHLKRGTLDLSkLSGLVLDEADEMLRMG------------FIedveTIMA 175
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 166 KRPI---VAAFTATATDEVKKdiINLLELKEP------NCFITGFDRDNLFFSiVKNENKFDFITKYLSKHKELSGIIYA 236
Cdd:PRK11634 176 QIPEghqTALFSATMPEAIRR--ITRRFMKEPqevriqSSVTTRPDISQSYWT-VWGMRKNEALVRFLEAEDFDAAIIFV 252
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 237 ATRKEVDSLHQKLISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNAFGMGIDKSNVRFVIHYNMPKNLESYYQE 316
Cdd:PRK11634 253 RTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGLDVERISLVVNYDIPMDSESYVHR 332
|
....*...
gi 499268582 317 AGRAGRDG 324
Cdd:PRK11634 333 IGRTGRAG 340
|
|
| PRK11192 |
PRK11192 |
ATP-dependent RNA helicase SrmB; Provisional |
214-340 |
1.98e-07 |
|
ATP-dependent RNA helicase SrmB; Provisional
Pssm-ID: 236877 [Multi-domain] Cd Length: 434 Bit Score: 54.18 E-value: 1.98e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 214 ENKFDFITKYLSKHKELSGIIYAATRKEVDSLHQKLISQGYSVGKYHAGMGDKERSESQDLFLYDETKLMIATNAFGMGI 293
Cdd:PRK11192 230 EHKTALLCHLLKQPEVTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVAARGI 309
|
90 100 110 120
....*....|....*....|....*....|....*....|....*..
gi 499268582 294 DKSNVRFVIHYNMPKNLESYYQEAGRAGRDGEKSECIILFSGQDIQI 340
Cdd:PRK11192 310 DIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAISLVEAHDHLL 356
|
|
| Rnd |
COG0349 |
Ribonuclease D [Translation, ribosomal structure and biogenesis]; |
524-599 |
2.97e-07 |
|
Ribonuclease D [Translation, ribosomal structure and biogenesis];
Pssm-ID: 440118 [Multi-domain] Cd Length: 365 Bit Score: 53.34 E-value: 2.97e-07
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 499268582 524 ILKAL---RLEIARRENVPPYIIFSDSVLSEMCKYYPKDKNSMLQIKGVGEIKYNKYGeifeEKIREYIKETNLTPEDN 599
Cdd:COG0349 212 VLRELaawREREARKRDVPRNRVLKDEALLELARRQPKSLEELARLRGLSPGEIRRHG----EELLAAVAEALALPEEE 286
|
|
| SF2_C_dicer |
cd18802 |
C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave ... |
217-332 |
4.07e-07 |
|
C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave double-stranded RNA (dsRNA) precursors to generate microRNAs (miRNAs) and small interfering RNAs (siRNAs). In concert with Argonautes, these small RNAs bind complementary mRNAs to down-regulate their expression. miRNAs are processed by Dicer from small hairpins, while siRNAs are typically processed from longer dsRNA, from endogenous sources, or exogenous sources such as viral replication intermediates. Some organisms, such as Homo sapiens and Caenorhabditis elegans, encode one Dicer that generates miRNAs and siRNAs, but other organisms have multiple dicers with specialized functions. Dicer exists throughout eukaryotes, and a subset has an N-terminal helicase domain of the RIG-I-like receptor (RLR) subgroup. RLRs often function in innate immunity and Dicer helicase domains sometimes show differences in activity that correlate with roles in immunity. Dicer helicase domains 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: 350189 [Multi-domain] Cd Length: 142 Bit Score: 49.90 E-value: 4.07e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 217 FDFITKYLSKHKELSGIIYAATRKEVDSL------HQK---------LISQGYSVGKYHAGMGDKERSESQDLFLYDETK 281
Cdd:cd18802 13 IEILREYFPKTPDFRGIIFVERRATAVVLsrllkeHPStlafircgfLIGRGNSSQRKRSLMTQRKQKETLDKFRDGELN 92
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|.
gi 499268582 282 LMIATNAFGMGIDKSNVRFVIHYNMPKNLESYYQEAGRAGRDGekSECIIL 332
Cdd:cd18802 93 LLIATSVLEEGIDVPACNLVIRFDLPKTLRSYIQSRGRARAPN--SKYILM 141
|
|
| SF2_C_Ski2 |
cd18795 |
C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an ... |
208-332 |
9.20e-07 |
|
C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. This family includes spliceosomal Brr2 RNA helicase, ASCC3 (involved in the repair of N-alkylated nucleotides), Mtr4 (involved in processing of structured RNAs), DDX60 (involved in viral RNA degradation), and other proteins. Ski2-like RNA helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.
Pssm-ID: 350182 [Multi-domain] Cd Length: 154 Bit Score: 49.09 E-value: 9.20e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 208 FSIVKNENKFDFITKYLSKHKELSG----IIYAATRKEVDSLHQKLIsqGysVGKYHAGMGDKERSESQDLFLYDETKLM 283
Cdd:cd18795 18 KLRVDVMNKFDSDIIVLLKIETVSEgkpvLVFCSSRKECEKTAKDLA--G--IAFHHAGLTREDRELVEELFREGLIKVL 93
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*....
gi 499268582 284 IATNAFGMGID--------KSNVRFVIHYNMPKNLESYYQEAGRAGRDG--EKSECIIL 332
Cdd:cd18795 94 VATSTLAAGVNlpartviiKGTQRYDGKGYRELSPLEYLQMIGRAGRPGfdTRGEAIIM 152
|
|
| SF2_C_SNF |
cd18793 |
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ... |
216-331 |
6.73e-06 |
|
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: 45.93 E-value: 6.73e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 216 KFDFITKYLSKHKELSG--IIYAATRKEVDSLHQKLISQGYSVGKYHAGMGDKERSESQDLF--LYDETKLMIATNAFGM 291
Cdd:cd18793 12 KLEALLELLEELREPGEkvLIFSQFTDTLDILEEALRERGIKYLRLDGSTSSKERQKLVDRFneDPDIRVFLLSTKAGGV 91
|
90 100 110 120
....*....|....*....|....*....|....*....|....
gi 499268582 292 GIDKSNVRFVIHY----NmPKNLEsyyQEAGRAGRDGEKSECII 331
Cdd:cd18793 92 GLNLTAANRVILYdpwwN-PAVEE---QAIDRAHRIGQKKPVVV 131
|
|
| ResIII |
pfam04851 |
Type III restriction enzyme, res subunit; |
23-176 |
7.43e-06 |
|
Type III restriction enzyme, res subunit;
Pssm-ID: 398492 [Multi-domain] Cd Length: 162 Bit Score: 46.51 E-value: 7.43e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 23 ENIIQSILDGNDTFAI-MPTGGGKSICY-QVPALYMKGL----TIVITPLISLMKDQVDTLRENGVNASYIN------ST 90
Cdd:pfam04851 13 ENLLESIKNGQKRGLIvMATGSGKTLTAaKLIARLFKKGpikkVLFLVPRKDLLEQALEEFKKFLPNYVEIGeiisgdKK 92
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 91 LSSKETNDILMSALSGHLKILYVAPERLEQDYFrnaikDLTIsmvaIDEAHcvsqwgHDFRVSYKRIvpfINIFdKRPIV 170
Cdd:pfam04851 93 DESVDDNKIVVTTIQSLYKALELASLELLPDFF-----DVII----IDEAH------RSGASSYRNI---LEYF-KPAFL 153
|
....*.
gi 499268582 171 AAFTAT 176
Cdd:pfam04851 154 LGLTAT 159
|
|
| SF2_C_LHR |
cd18796 |
C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a ... |
224-327 |
2.20e-05 |
|
C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a DNA damage-inducible helicase that uses ATP hydrolysis to drive unidirectional 3'-to-5' translocation along single-stranded DNA (ssDNA) and to unwind RNA:DNA duplexes. This group also includes related bacterial and archaeal helicases. LHR family helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.
Pssm-ID: 350183 [Multi-domain] Cd Length: 150 Bit Score: 44.95 E-value: 2.20e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499268582 224 LSKHKelSGIIYAATRKEVDSLHQKL---ISQGYSVGKY--HAGMGDKE-RSESQDLFLYDETKLMIATNAFGMGIDKSN 297
Cdd:cd18796 35 LERHK--STLVFTNTRSQAERLAQRLrelCPDRVPPDFIalHHGSLSRElREEVEAALKRGDLKVVVATSSLELGIDIGD 112
|
90 100 110
....*....|....*....|....*....|.
gi 499268582 298 VRFVIHYNMPKNLESYYQEAGRAG-RDGEKS 327
Cdd:cd18796 113 VDLVIQIGSPKSVARLLQRLGRSGhRPGAAS 143
|
|
| DEXHc_Hrq1-like |
cd17923 |
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a ... |
22-79 |
1.29e-04 |
|
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a role in DNA inter-strand crosslink (ICL) repair and in telomere maintenance. Hrq1 lacks the Sld2-like domain found in RecQ4. Hrq1 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350681 [Multi-domain] Cd Length: 182 Bit Score: 43.34 E-value: 1.29e-04
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 499268582 22 QENIIQSILDGNDTFAIMPTGGGKSICYQVPALY----MKGLT-IVITPLISLMKDQVDTLRE 79
Cdd:cd17923 5 QAEAIEAARAGRSVVVTTGTASGKSLCYQLPILEallrDPGSRaLYLYPTKALAQDQLRSLRE 67
|
|
| |
