|
Name |
Accession |
Description |
Interval |
E-value |
| RecQ |
COG0514 |
Superfamily II DNA helicase RecQ [Replication, recombination and repair]; |
1-402 |
4.54e-159 |
|
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
Pssm-ID: 440280 [Multi-domain] Cd Length: 489 Bit Score: 456.91 E-value: 4.54e-159
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 1 DGMVLIVSPLLSLMEDQVQQLKARGEkRAAALNSMLNRQERQFVLEHIH--RYKFLYLSPEALQSPYVLEKLKSVPISLF 78
Cdd:COG0514 57 PGLTLVVSPLIALMKDQVDALRAAGI-RAAFLNSSLSAEERREVLRALRagELKLLYVAPERLLNPRFLELLRRLKISLF 135
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 79 VIDEAHCISEWGHDFRPDYSKLGQLRKKLGHPPVLALTATATKETLQDVMNLLELQHAVRHLNSVNRPNIALRVENAADt 158
Cdd:COG0514 136 AIDEAHCISQWGHDFRPDYRRLGELRERLPNVPVLALTATATPRVRADIAEQLGLEDPRVFVGSFDRPNLRLEVVPKPP- 214
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 159 AEKIDRVIQLVENLQG-PGIVYCPTRKWAKELAGEIKSKtSSRADFYHGGLESGDRILIQQQFIHNQLDVICCTNAFGMG 237
Cdd:COG0514 215 DDKLAQLLDFLKEHPGgSGIVYCLSRKKVEELAEWLREA-GIRAAAYHAGLDAEEREANQDRFLRDEVDVIVATIAFGMG 293
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 238 VDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGKPSVSILLRAPGDFELQEQIIQMESVTAEEiadvirvlektEERDERR 317
Cdd:COG0514 294 IDKPDVRFVIHYDLPKSIEAYYQEIGRAGRDGLPAEALLLYGPEDVAIQRFFIEQSPPDEER-----------KRVERAK 362
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 318 LRDvLLQYgvGETQarmmihlfmqgktsvelmkkeisyrmelklekmhrvsfllqrdGCLRQALLTYFDESYEPDDGNlp 397
Cdd:COG0514 363 LDA-MLAY--AETT-------------------------------------------GCRRQFLLRYFGEELAEPCGN-- 394
|
....*
gi 124442020 398 cCSHC 402
Cdd:COG0514 395 -CDNC 398
|
|
| recQ |
TIGR01389 |
ATP-dependent DNA helicase RecQ; The ATP-dependent DNA helicase RecQ of E. coli is about 600 ... |
1-402 |
1.85e-96 |
|
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: 300.07 E-value: 1.85e-96
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 1 DGMVLIVSPLLSLMEDQVQQLKARGeKRAAALNSMLNRQERQFVLEHIH--RYKFLYLSPEALQSPYVLEKLKSVPISLF 78
Cdd:TIGR01389 53 KGLTVVISPLISLMKDQVDQLRAAG-VAAAYLNSTLSAKEQQDIEKALVngELKLLYVAPERLEQDYFLNMLQRIPIALV 131
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 79 VIDEAHCISEWGHDFRPDYSKLGQLRKKLGHPPVLALTATATKETLQDVMNLLELQHAVRHLNSVNRPNIALRVEnaadt 158
Cdd:TIGR01389 132 AVDEAHCVSQWGHDFRPEYQRLGSLAERFPQVPRIALTATADAETRQDIRELLRLADANEFITSFDRPNLRFSVV----- 206
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 159 aEKIDRVIQLVENLQ----GPGIVYCPTRKWAKELAGEIKSKTSSrADFYHGGLESGDRILIQQQFIHNQLDVICCTNAF 234
Cdd:TIGR01389 207 -KKNNKQKFLLDYLKkhrgQSGIIYASSRKKVEELAERLESQGIS-ALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAF 284
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 235 GMGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGKPSVSILLRAPGDFELQEQIIQmESVTAEEIADVIRvlekteerd 314
Cdd:TIGR01389 285 GMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAILLYSPADIALLKRRIE-QSEADDDYKQIER--------- 354
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 315 eRRLRDVllqYGVGETQArmmihlfmqgktsvelmkkeisyrmelklekmhrvsfllqrdgCLRQALLTYFDESYEPDDG 394
Cdd:TIGR01389 355 -EKLRAM---IAYCETQT-------------------------------------------CRRAYILRYFGENEVEPCG 387
|
....*...
gi 124442020 395 NlpcCSHC 402
Cdd:TIGR01389 388 N---CDNC 392
|
|
| recQ_fam |
TIGR00614 |
ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are ... |
1-325 |
1.79e-90 |
|
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: 280.89 E-value: 1.79e-90
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 1 DGMVLIVSPLLSLMEDQVQQLKARGEKrAAALNSMLNRQERQFVLEHIH--RYKFLYLSPEAL-QSPYVLEKLKS-VPIS 76
Cdd:TIGR00614 51 DGITLVISPLISLMEDQVLQLQALGIP-ATFLNSAQTKEQQLNVLTDLKdgKIKLLYVTPEKIsASNRLLQTLEErKGIT 129
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 77 LFVIDEAHCISEWGHDFRPDYSKLGQLRKKLGHPPVLALTATATKETLQDVMNLLELQHAVRHLNSVNRPNIALRVEnaa 156
Cdd:TIGR00614 130 LIAVDEAHCISQWGHDFRPDYKALGSLKQKFPNVPVMALTATASPSVREDILRQLNLLNPQIFCTSFDRPNLYYEVR--- 206
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 157 dtaEKIDRVIQ-----LVENLQGP-GIVYCPTRKWAKELAGEIKSKTSSrADFYHGGLESGDRILIQQQFIHNQLDVICC 230
Cdd:TIGR00614 207 ---RKTPKILEdllrfIRKEFEGKsGIIYCPSRKKVEQVAAELQKLGLA-AGAYHAGLEDSARDDVQHKFQRDEIQVVVA 282
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 231 TNAFGMGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGKPSVSILLRAPGDFELQEQIIQMESVTAEEIAdVIRVLEKT 310
Cdd:TIGR00614 283 TVAFGMGINKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECHLFYAPADMNRLRRLLMEEPDGNFRTY-KLKLYEMM 361
|
330
....*....|....*....
gi 124442020 311 EERDE----RRLrdVLLQY 325
Cdd:TIGR00614 362 EYCLNsstcRRL--ILLSY 378
|
|
| PRK11057 |
PRK11057 |
ATP-dependent DNA helicase RecQ; Provisional |
1-282 |
9.31e-84 |
|
ATP-dependent DNA helicase RecQ; Provisional
Pssm-ID: 182933 [Multi-domain] Cd Length: 607 Bit Score: 267.73 E-value: 9.31e-84
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 1 DGMVLIVSPLLSLMEDQVQQLKARGEKrAAALNSMLNRQERQFVLEHIH--RYKFLYLSPEALQSPYVLEKLKSVPISLF 78
Cdd:PRK11057 65 DGLTLVVSPLISLMKDQVDQLLANGVA-AACLNSTQTREQQLEVMAGCRtgQIKLLYIAPERLMMDNFLEHLAHWNPALL 143
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 79 VIDEAHCISEWGHDFRPDYSKLGQLRKKLGHPPVLALTATATKETLQDVMNLLELQHAVRHLNSVNRPNIALRVenaadt 158
Cdd:PRK11057 144 AVDEAHCISQWGHDFRPEYAALGQLRQRFPTLPFMALTATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYTL------ 217
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 159 AEKIDRVIQLVENLQGP----GIVYCPTRKWAKELAGEIKSKTSSRADfYHGGLESGDRILIQQQFIHNQLDVICCTNAF 234
Cdd:PRK11057 218 VEKFKPLDQLMRYVQEQrgksGIIYCNSRAKVEDTAARLQSRGISAAA-YHAGLDNDVRADVQEAFQRDDLQIVVATVAF 296
|
250 260 270 280
....*....|....*....|....*....|....*....|....*...
gi 124442020 235 GMGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGKPSVSILLRAPGD 282
Cdd:PRK11057 297 GMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPAD 344
|
|
| PLN03137 |
PLN03137 |
ATP-dependent DNA helicase; Q4-like; Provisional |
2-291 |
2.66e-66 |
|
ATP-dependent DNA helicase; Q4-like; Provisional
Pssm-ID: 215597 [Multi-domain] Cd Length: 1195 Bit Score: 228.63 E-value: 2.66e-66
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 2 GMVLIVSPLLSLMEDQVQQLkARGEKRAAALNSMLNRQERQFVLEHIH----RYKFLYLSPEAL-QSPYVLEKLKSVP-- 74
Cdd:PLN03137 501 GITLVISPLVSLIQDQIMNL-LQANIPAASLSAGMEWAEQLEILQELSseysKYKLLYVTPEKVaKSDSLLRHLENLNsr 579
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 75 --ISLFVIDEAHCISEWGHDFRPDYSKLGQLRKKLGHPPVLALTATATKETLQDVMNLLELQHAVRHLNSVNRPNIALRV 152
Cdd:PLN03137 580 glLARFVIDEAHCVSQWGHDFRPDYQGLGILKQKFPNIPVLALTATATASVKEDVVQALGLVNCVVFRQSFNRPNLWYSV 659
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 153 -ENAADTAEKIDRVIQlvEN-LQGPGIVYCPTRKWAKELAgEIKSKTSSRADFYHGGLESGDRILIQQQFIHNQLDVICC 230
Cdd:PLN03137 660 vPKTKKCLEDIDKFIK--ENhFDECGIIYCLSRMDCEKVA-ERLQEFGHKAAFYHGSMDPAQRAFVQKQWSKDEINIICA 736
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 124442020 231 TNAFGMGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGKPSVSILLRAPGDF-ELQEQIIQ 291
Cdd:PLN03137 737 TVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYYSYSDYiRVKHMISQ 798
|
|
| DEXHc_RecQ |
cd17920 |
DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box ... |
1-144 |
6.12e-64 |
|
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: 203.53 E-value: 6.12e-64
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 1 DGMVLIVSPLLSLMEDQVQQLKARGeKRAAALNSMLNRQERQFVLEHIHR--YKFLYLSPEALQSPYVLEKLKSVP---- 74
Cdd:cd17920 52 DGVTLVVSPLISLMQDQVDRLQQLG-IRAAALNSTLSPEEKREVLLRIKNgqYKLLYVTPERLLSPDFLELLQRLPerkr 130
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 75 ISLFVIDEAHCISEWGHDFRPDYSKLGQLRKKLGHPPVLALTATATKETLQDVMNLLELQHAVRHLNSVN 144
Cdd:cd17920 131 LALIVVDEAHCVSQWGHDFRPDYLRLGRLRRALPGVPILALTATATPEVREDILKRLGLRNPVIFRASFD 200
|
|
| SF2_C_RecQ |
cd18794 |
C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an ... |
145-278 |
3.13e-62 |
|
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: 196.66 E-value: 3.13e-62
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 145 RPNIALRVENAADTAEKIDR-VIQLVENLQGPGIVYCPTRKWAKELAGEIKSKTSSRADfYHGGLESGDRILIQQQFIHN 223
Cdd:cd18794 1 RPNLFYSVRPKDKKDEKLDLlKRIKVEHLGGSGIIYCLSRKECEQVAARLQSKGISAAA-YHAGLEPSDRRDVQRKWLRD 79
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*
gi 124442020 224 QLDVICCTNAFGMGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGKPSVSILLR 278
Cdd:cd18794 80 KIQVIVATVAFGMGIDKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECILFY 134
|
|
| DpdF |
NF041063 |
protein DpdF; |
1-293 |
6.32e-52 |
|
protein DpdF;
Pssm-ID: 468990 [Multi-domain] Cd Length: 813 Bit Score: 185.89 E-value: 6.32e-52
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 1 DGMVLIVSPLLSLMEDQVQQLKARGEKRAA------ALNSMLNRQERQFVLEHIH--RYKFLYLSPEALQSP--YVLEKL 70
Cdd:NF041063 186 GGLTLVVVPTVALAIDQERRARELLRRAGPdlggplAWHGGLSAEERAAIRQRIRdgTQRILFTSPESLTGSlrPALFDA 265
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 71 -KSVPISLFVIDEAHCISEWGHDFRPDYSKLGQLRKKL------GHPPV-LALTATATKETLQDVMNLLELQHAVRHLNS 142
Cdd:NF041063 266 aEAGLLRYLVVDEAHLVDQWGDGFRPEFQLLAGLRRSLlrlapsGRPFRtLLLSATLTESTLDTLETLFGPPGPFIVVSA 345
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 143 VN-RPNIALRVENAADTAEKIDRVIQLVENLQGPGIVYCPTRKWAKELAGEIKSKTSSRADFYHGGLESGDRILIQQQFI 221
Cdd:NF041063 346 VQlRPEPAYWVAKCDSEEERRERVLEALRHLPRPLILYVTKVEDAEAWLQRLRAAGFRRVALFHGDTPDAERERLIEQWR 425
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 124442020 222 HNQLDVICCTNAFGMGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGKPSVSILLRAPGDFEL-----QEQIIQME 293
Cdd:NF041063 426 ENELDIVVATSAFGLGMDKSDVRTVIHACVPETLDRFYQEVGRGGRDGKASLSLLIYTPDDLDIakslnRPKLISVE 502
|
|
| DEXHc_RecQ4-like |
cd18018 |
DEAH-box helicase domain of RecQ4 and similar proteins; ATP-dependent DNA helicase Q4 (RecQ4) ... |
1-134 |
7.11e-50 |
|
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: 167.05 E-value: 7.11e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 1 DGMVLIVSPLLSLMEDQVQQLKARgeKRAAALNSMLNRQERQFVLEHIHR--YKFLYLSPEALQSPYVLEKLKSV-PISL 77
Cdd:cd18018 56 PGLTLVVSPLIALMKDQVDALPRA--IKAAALNSSLTREERRRILEKLRAgeVKILYVSPERLVNESFRELLRQTpPISL 133
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*...
gi 124442020 78 FVIDEAHCISEWGHDFRPDYSKLGQ-LRKKLGHPPVLALTATATKETLQDVMNLLELQ 134
Cdd:cd18018 134 LVVDEAHCISEWSHNFRPDYLRLCRvLRELLGAPPVLALTATATKRVVEDIASHLGIP 191
|
|
| DEXHc_RecQ1 |
cd18015 |
DEXH-box helicase domain of RecQ1; ATP-dependent DNA helicase Q1 (RecQ1) is part of the RecQ ... |
1-144 |
3.80e-38 |
|
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: 136.73 E-value: 3.80e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 1 DGMVLIVSPLLSLMEDQVQQLKARGeKRAAALNSMLNRQERQFVLEHI----HRYKFLYLSPEALQSPYV----LEKLKS 72
Cdd:cd18015 58 DGFTLVVSPLISLMEDQLMALKKLG-ISATMLNASSSKEHVKWVHAALtdknSELKLLYVTPEKIAKSKRfmskLEKAYN 136
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 124442020 73 VP-ISLFVIDEAHCISEWGHDFRPDYSKLGQLRKKLGHPPVLALTATATKETLQDVMNLLELQHAVRHLNSVN 144
Cdd:cd18015 137 AGrLARIAIDEVHCCSQWGHDFRPDYKKLGILKRQFPNVPILGLTATATSKVLKDVQKILCIQKCLTFTASFN 209
|
|
| DEXHc_RecQ3 |
cd18017 |
DEAH-box helicase domain of RecQ3; DEAD-like helicase RecQ3 (also called Werner syndrome ... |
1-137 |
4.14e-38 |
|
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: 136.06 E-value: 4.14e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 1 DGMVLIVSPLLSLMEDQVQQLKARGEKrAAALNSMLNRQERQFVLehIHRYKFLYLSPEALQS-PYVLEKLkSVPISLFV 79
Cdd:cd18017 53 NSLTLVISPLISLMEDQVLQLVMSNIP-ACFLGSAQSQNVLDDIK--MGKIRVIYVTPEFVSKgLELLQQL-RNGITLIA 128
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*...
gi 124442020 80 IDEAHCISEWGHDFRPDYSKLGQLRKKLGHPPVLALTATATKETLQDVMNLLELQHAV 137
Cdd:cd18017 129 IDEAHCVSQWGHDFRSSYRHLGSIRNRLPNVPIVALTATATPSVRDDIIKNLNLRNPQ 186
|
|
| DEXHc_RecQ5 |
cd18014 |
DEAH-box helicase domain of RecQ5; ATP-dependent DNA helicase Q5 (RecQ5) is part of the RecQ ... |
2-138 |
1.77e-36 |
|
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: 132.21 E-value: 1.77e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 2 GMVLIVSPLLSLMEDQVQQLKARgEKRAAALNSMLNRQERQFVLEHIHR----YKFLYLSPEALQSPYVLEKLKSV---- 73
Cdd:cd18014 55 GITIVISPLIALIQDQVDHLKTL-KIRVDSLNSKLSAQERKRIIADLESekpqTKFLYITPEMAATSSFQPLLSSLvsrn 133
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 124442020 74 PISLFVIDEAHCISEWGHDFRPDYSKLGQLRKKLGHPPVLALTATATKETLQDVMNLLELQHAVR 138
Cdd:cd18014 134 LLSYLVVDEAHCVSQWGHDFRPDYLRLGALRSRYGHVPWVALTATATPQVQEDIFAQLRLKKPVA 198
|
|
| DEXHc_RecQ2_BLM |
cd18016 |
DEAH-box helicase domain of RecQ2; ATP-dependent DNA helicase Q2 (RecQ2, also called Bloom ... |
2-144 |
2.97e-30 |
|
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: 115.69 E-value: 2.97e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 2 GMVLIVSPLLSLMEDQVQQLKA--------RGEKRAAALNSMLNRQERQFVLehihrYKFLYLSPEALQSP----YVLEK 69
Cdd:cd18016 58 GVTVVISPLRSLIVDQVQKLTSldipatylTGDKTDAEATKIYLQLSKKDPI-----IKLLYVTPEKISASnrliSTLEN 132
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 124442020 70 LKSVP-ISLFVIDEAHCISEWGHDFRPDYSKLGQLRKKLGHPPVLALTATATKETLQDVMNLLELQHAVRHLNSVN 144
Cdd:cd18016 133 LYERKlLARFVIDEAHCVSQWGHDFRPDYKRLNMLRQKFPSVPMMALTATATPRVQKDILNQLKMLRPQVFTMSFN 208
|
|
| Helicase_C |
pfam00271 |
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ... |
160-269 |
2.89e-21 |
|
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: 88.04 E-value: 2.89e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 160 EKIDRVIQLVENLQGP-GIVYCPTRKWAKelAGEIKSKTSSRADFYHGGLESGDRILIQQQFIHNQLDVICCTNAFGMGV 238
Cdd:pfam00271 1 EKLEALLELLKKERGGkVLIFSQTKKTLE--AELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGL 78
|
90 100 110
....*....|....*....|....*....|.
gi 124442020 239 DKPDIRYVIHFHLPQTAEAFMQEIGRAGRDG 269
Cdd:pfam00271 79 DLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
|
|
| HELICc |
smart00490 |
helicase superfamily c-terminal domain; |
200-269 |
2.71e-19 |
|
helicase superfamily c-terminal domain;
Pssm-ID: 197757 [Multi-domain] Cd Length: 82 Bit Score: 81.49 E-value: 2.71e-19
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 200 RADFYHGGLESGDRILIQQQFIHNQLDVICCTNAFGMGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDG 269
Cdd:smart00490 13 KVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
|
|
| DEAD |
pfam00270 |
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ... |
2-122 |
6.03e-19 |
|
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: 83.45 E-value: 6.03e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 2 GMVLIVSPLLSLMEDQVQQLKARGEKRAAALNSMLNRQERQFVLEHIHRYKFLYLSPEALQSPYVLEK-LKSVpiSLFVI 80
Cdd:pfam00270 46 PQALVLAPTRELAEQIYEELKKLGKGLGLKVASLLGGDSRKEQLEKLKGPDILVGTPGRLLDLLQERKlLKNL--KLLVL 123
|
90 100 110 120
....*....|....*....|....*....|....*....|...
gi 124442020 81 DEAHCISEWGhdFRPDYSK-LGQLRKKlghPPVLALTATATKE 122
Cdd:pfam00270 124 DEAHRLLDMG--FGPDLEEiLRRLPKK---RQILLLSATLPRN 161
|
|
| PLN00206 |
PLN00206 |
DEAD-box ATP-dependent RNA helicase; Provisional |
75-276 |
9.87e-16 |
|
DEAD-box ATP-dependent RNA helicase; Provisional
Pssm-ID: 215103 [Multi-domain] Cd Length: 518 Bit Score: 78.68 E-value: 9.87e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 75 ISLFVIDEAHCISEWGhdFRpdySKLGQLRKKLGHPPVLALTATATKEtLQDVMNLLELQHAVRHLNSVNRPNIALR--- 151
Cdd:PLN00206 271 VSVLVLDEVDCMLERG--FR---DQVMQIFQALSQPQVLLFSATVSPE-VEKFASSLAKDIILISIGNPNRPNKAVKqla 344
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 152 --VEnAADTAEKIDRVIQLVENLQGPGIVYCPTRKWAKELAGEIKSKTSSRADFYHGGLESGDRILIQQQFIHNQLDVIC 229
Cdd:PLN00206 345 iwVE-TKQKKQKLFDILKSKQHFKPPAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVGEVPVIV 423
|
170 180 190 200
....*....|....*....|....*....|....*....|....*..
gi 124442020 230 CTNAFGMGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGKPSVSIL 276
Cdd:PLN00206 424 ATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIV 470
|
|
| SF2_C_DEAD |
cd18787 |
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ... |
168-277 |
2.36e-15 |
|
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: 72.15 E-value: 2.36e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 168 LVENLQGPGIVYCPTRKWAKELAGEIKSKtSSRADFYHGGLESGDRILIQQQFIHNQLDVICCTNAFGMGVDKPDIRYVI 247
Cdd:cd18787 22 LEKLKPGKAIIFVNTKKRVDRLAELLEEL-GIKVAALHGDLSQEERERALKKFRSGKVRVLVATDVAARGLDIPGVDHVI 100
|
90 100 110
....*....|....*....|....*....|
gi 124442020 248 HFHLPQTAEAFMQEIGRAGRDGKPSVSILL 277
Cdd:cd18787 101 NYDLPRDAEDYVHRIGRTGRAGRKGTAITF 130
|
|
| SF2_C_Hrq |
cd18797 |
C-terminal helicase domain of HrQ family helicases; Yeast Hrq1, similar to RecQ4, plays a role ... |
177-277 |
3.88e-15 |
|
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: 71.90 E-value: 3.88e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 177 IVYCPTRKWAKELAGEIKS------KTSSRADFYHGGLESGDRILIQQQFIHNQLDVICCTNAFGMGVDKPDIRYVIHFH 250
Cdd:cd18797 39 IVFCRSRKLAELLLRYLKArlveegPLASKVASYRAGYLAEDRREIEAELFNGELLGVVATNALELGIDIGGLDAVVLAG 118
|
90 100
....*....|....*....|....*..
gi 124442020 251 LPQTAEAFMQEIGRAGRDGKPSVSILL 277
Cdd:cd18797 119 YPGSLASLWQQAGRAGRRGKDSLVILV 145
|
|
| DEXDc |
smart00487 |
DEAD-like helicases superfamily; |
1-131 |
1.54e-13 |
|
DEAD-like helicases superfamily;
Pssm-ID: 214692 [Multi-domain] Cd Length: 201 Bit Score: 69.06 E-value: 1.54e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 1 DGMVLIVSPLLSLMEDQVQQLKARGEKRAAALNSMLNRQERQFVLEHIHR--YKFLYLSPEALQSPYVLEKLKSVPISLF 78
Cdd:smart00487 54 GGRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKLESgkTDILVTTPGRLLDLLENDKLSLSNVDLV 133
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*.
gi 124442020 79 VIDEAHCISEWGhdFRPDYSKLGQLRKKlgHPPVLALTATAT---KETLQDVMNLL 131
Cdd:smart00487 134 ILDEAHRLLDGG--FGDQLEKLLKLLPK--NVQLLLLSATPPeeiENLLELFLNDP 185
|
|
| SrmB |
COG0513 |
Superfamily II DNA and RNA helicase [Replication, recombination and repair]; |
75-319 |
1.02e-12 |
|
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
Pssm-ID: 440279 [Multi-domain] Cd Length: 420 Bit Score: 69.02 E-value: 1.02e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 75 ISLFVIDEAhcisewghD------FRPDysklgqLRKKLGHPP----VLALTATATKEtlqdVMNLLE--LQHAVRHlnS 142
Cdd:COG0513 146 VETLVLDEA--------DrmldmgFIED------IERILKLLPkerqTLLFSATMPPE----IRKLAKryLKNPVRI--E 205
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 143 VNRPN-IALRVEN---AADTAEKIDRVIQLVENLQ-GPGIVYCPTRKWAKELAGEIKSKtSSRADFYHGGLESGDRILIQ 217
Cdd:COG0513 206 VAPENaTAETIEQryyLVDKRDKLELLRRLLRDEDpERAIVFCNTKRGADRLAEKLQKR-GISAAALHGDLSQGQRERAL 284
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 218 QQFIHNQLDVICCTNAFGMGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGKPSVSILLRAPGDFELQEQIiqmESVTA 297
Cdd:COG0513 285 DAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLPEDPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAI---EKLIG 361
|
250 260
....*....|....*....|..
gi 124442020 298 EEIAdvIRVLEKTEERDERRLR 319
Cdd:COG0513 362 QKIE--EEELPGFEPVEEKRLE 381
|
|
| BRR2 |
COG1204 |
Replicative superfamily II helicase [Replication, recombination and repair]; |
74-322 |
1.93e-11 |
|
Replicative superfamily II helicase [Replication, recombination and repair];
Pssm-ID: 440817 [Multi-domain] Cd Length: 529 Bit Score: 65.69 E-value: 1.93e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 74 PISLFVIDEAHCIsewGHDFR-PDY-SKLGQLRKKLGHPPVLALTATAtkETLQDVMNLL------------ELQHAVRH 139
Cdd:COG1204 137 DVDLVVVDEAHLI---DDESRgPTLeVLLARLRRLNPEAQIVALSATI--GNAEEIAEWLdaelvksdwrpvPLNEGVLY 211
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 140 LNSVNRPNIALRVENAAdtaekIDRVIQLVENlQGPGIVYCPTRK----WAKELAGEIKSKTSSRAD------------- 202
Cdd:COG1204 212 DGVLRFDDGSRRSKDPT-----LALALDLLEE-GGQVLVFVSSRRdaesLAKKLADELKRRLTPEEReeleelaeellev 285
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 203 -------------------FYHGGLESGDRILIQQQFIHNQLDVICCTNAFGMGVDKPdIRYVI------HFHLPQTAEA 257
Cdd:COG1204 286 seethtnekladclekgvaFHHAGLPSELRRLVEDAFREGLIKVLVATPTLAAGVNLP-ARRVIirdtkrGGMVPIPVLE 364
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 124442020 258 FMQEIGRAGRDGKPSV--SILLRAPGD--FELQEQIIQME-----SVTAEEIA---DVIRVLEKTEERDERRLRDVL 322
Cdd:COG1204 365 FKQMAGRAGRPGYDPYgeAILVAKSSDeaDELFERYILGEpepirSKLANESAlrtHLLALIASGFANSREELLDFL 441
|
|
| YprA |
COG1205 |
ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, ... |
177-277 |
4.02e-11 |
|
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: 64.86 E-value: 4.02e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 177 IVYCPTRK-------WAKELAGEIKSKTSSRAdfYHGGLESGDRILIQQQFIHNQLDVICCTNAFGMGVDKPDIRYVIHF 249
Cdd:COG1205 292 LVFTRSRRgaellarYARRALREPDLADRVAA--YRAGYLPEERREIERGLRSGELLGVVSTNALELGIDIGGLDAVVLA 369
|
90 100
....*....|....*....|....*...
gi 124442020 250 HLPQTAEAFMQEIGRAGRDGKPSVSILL 277
Cdd:COG1205 370 GYPGTRASFWQQAGRAGRRGQDSLVVLV 397
|
|
| PTZ00424 |
PTZ00424 |
helicase 45; Provisional |
161-300 |
8.69e-11 |
|
helicase 45; Provisional
Pssm-ID: 185609 [Multi-domain] Cd Length: 401 Bit Score: 63.31 E-value: 8.69e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 161 KIDRVIQLVENLQ-GPGIVYCPTRKWAKELAGEIKSKtssraDF----YHGGLESGDRILIQQQFIHNQLDVICCTNAFG 235
Cdd:PTZ00424 254 KFDTLCDLYETLTiTQAIIYCNTRRKVDYLTKKMHER-----DFtvscMHGDMDQKDRDLIMREFRSGSTRVLITTDLLA 328
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 124442020 236 MGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGKPSVSILLRAPGDFELQEQIIQMESVTAEEI 300
Cdd:PTZ00424 329 RGIDVQQVSLVINYDLPASPENYIHRIGRSGRFGRKGVAINFVTPDDIEQLKEIERHYNTQIEEM 393
|
|
| SSL2 |
COG1061 |
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair]; |
76-363 |
1.17e-10 |
|
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
Pssm-ID: 440681 [Multi-domain] Cd Length: 566 Bit Score: 63.12 E-value: 1.17e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 76 SLFVIDEAHcisewgHDFRPDYSKLgqlRKKLGHPPVLALTAT-----------------ATKETLQDVMN---LLELQH 135
Cdd:COG1061 189 GLVIIDEAH------HAGAPSYRRI---LEAFPAAYRLGLTATpfrsdgreillflfdgiVYEYSLKEAIEdgyLAPPEY 259
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 136 AVRH------LNSVNRPNIALRVENAADTAEKIDRVIQLVENL--QGPGIVYCPTRKWAKELAGEIKsKTSSRADFYHGG 207
Cdd:COG1061 260 YGIRvdltdeRAEYDALSERLREALAADAERKDKILRELLREHpdDRKTLVFCSSVDHAEALAELLN-EAGIRAAVVTGD 338
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 208 LESGDRILIQQQFIHNQLDVICCTNAFGMGVDKPDIRYVIhFHLP-QTAEAFMQEIGRA--GRDGKPSVSILLRAPGDFE 284
Cdd:COG1061 339 TPKKEREEILEAFRDGELRILVTVDVLNEGVDVPRLDVAI-LLRPtGSPREFIQRLGRGlrPAPGKEDALVYDFVGNDVP 417
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 285 LQEQI---IQMESVTAEEIADVIRVLEKTEERDERRLRDVLLQYGVGETQARMMIHLFMQGKTSVELMKKEISYRMELKL 361
Cdd:COG1061 418 VLEELakdLRDLAGYRVEFLDEEESEELALLIAVKPALEVKGELEEELLEELELLEDALLLVLAELLLLELLALALELLE 497
|
..
gi 124442020 362 EK 363
Cdd:COG1061 498 LA 499
|
|
| SF2_C_Ski2 |
cd18795 |
C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an ... |
174-269 |
9.89e-08 |
|
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: 51.01 E-value: 9.89e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 174 GPGIVYCPTRKW----AKELAGeIKsktssradFYHGGLESGDRILIQQQFIHNQLDVICCTNAFGMGVDKP-------- 241
Cdd:cd18795 44 KPVLVFCSSRKEcektAKDLAG-IA--------FHHAGLTREDRELVEELFREGLIKVLVATSTLAAGVNLPartviikg 114
|
90 100
....*....|....*....|....*...
gi 124442020 242 DIRYVIHFHLPQTAEAFMQEIGRAGRDG 269
Cdd:cd18795 115 TQRYDGKGYRELSPLEYLQMIGRAGRPG 142
|
|
| SF2_C |
cd18785 |
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ... |
221-277 |
1.97e-07 |
|
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: 48.08 E-value: 1.97e-07
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 124442020 221 IHNQLDVICCTNAFGMGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGK-PSVSILL 277
Cdd:cd18785 19 IASSLEILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGRGGKdEGEVILF 76
|
|
| PRK11192 |
PRK11192 |
ATP-dependent RNA helicase SrmB; Provisional |
156-277 |
9.61e-07 |
|
ATP-dependent RNA helicase SrmB; Provisional
Pssm-ID: 236877 [Multi-domain] Cd Length: 434 Bit Score: 50.71 E-value: 9.61e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 156 ADTAE-KIDRVIQLVENLQ-GPGIVYCPTRKWAKELAGEIKsKTSSRADFYHGGLESGDRILIQQQFIHNQLDVICCTNA 233
Cdd:PRK11192 226 ADDLEhKTALLCHLLKQPEvTRSIVFVRTRERVHELAGWLR-KAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDV 304
|
90 100 110 120
....*....|....*....|....*....|....*....|....
gi 124442020 234 FGMGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGKPSVSILL 277
Cdd:PRK11192 305 AARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAISL 348
|
|
| PTZ00110 |
PTZ00110 |
helicase; Provisional |
75-292 |
1.07e-06 |
|
helicase; Provisional
Pssm-ID: 240273 [Multi-domain] Cd Length: 545 Bit Score: 50.54 E-value: 1.07e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 75 ISLFVIDEAHCISEWGhdFRPDYSKL-GQLRkklghpP---VLALTATATKETLQDVMNLLelQHAVRHLN--SVNRP-- 146
Cdd:PTZ00110 278 VTYLVLDEADRMLDMG--FEPQIRKIvSQIR------PdrqTLMWSATWPKEVQSLARDLC--KEEPVHVNvgSLDLTac 347
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 147 -NIALRVeNAADTAEKIDRVIQLVENLQGPG---IVYCPTRKWAKELAGEIksktssRADFY-----HGGLESGDRILIQ 217
Cdd:PTZ00110 348 hNIKQEV-FVVEEHEKRGKLKMLLQRIMRDGdkiLIFVETKKGADFLTKEL------RLDGWpalciHGDKKQEERTWVL 420
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 124442020 218 QQFIHNQLDVICCTNAFGMGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGKPSVSILLRAPGDFELQEQIIQM 292
Cdd:PTZ00110 421 NEFKTGKSPIMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYTFLTPDKYRLARDLVKV 495
|
|
| SF2-N |
cd00046 |
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ... |
4-118 |
3.27e-06 |
|
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: 46.63 E-value: 3.27e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 4 VLIVSPLLSLMEDQVQQLKARGEK--RAAALNSMLNRQERQFVLEHihRYKFLYLSPEALQSPYVLEKLKSVP-ISLFVI 80
Cdd:cd00046 33 VLVLVPTKALALQTAERLRELFGPgiRVAVLVGGSSAEEREKNKLG--DADIIIATPDMLLNLLLREDRLFLKdLKLIIV 110
|
90 100 110
....*....|....*....|....*....|....*...
gi 124442020 81 DEAHCISEWGHDFRPDYskLGQLRKKLGHPPVLALTAT 118
Cdd:cd00046 111 DEAHALLIDSRGALILD--LAVRKAGLKNAQVILLSAT 146
|
|
| PRK01297 |
PRK01297 |
ATP-dependent RNA helicase RhlB; Provisional |
202-275 |
8.19e-06 |
|
ATP-dependent RNA helicase RhlB; Provisional
Pssm-ID: 234938 [Multi-domain] Cd Length: 475 Bit Score: 47.60 E-value: 8.19e-06
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 124442020 202 DFYHGGLESGD-----RILIQQQFIHNQLDVICCTNAFGMGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGKPSVSI 275
Cdd:PRK01297 358 DGINAAQLSGDvpqhkRIKTLEGFREGKIRVLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGVSI 436
|
|
| RecQ_Zn_bind |
pfam16124 |
RecQ zinc-binding; This domain is the zinc-binding domain of ATP-dependent DNA helicase RecQ. |
334-402 |
2.96e-05 |
|
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: 41.51 E-value: 2.96e-05
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 334 MMIHLFMQGKTSVELMKKEISYRmelKLEKMhrVSFLLQRDGCLRQALLTYFDESYEPDD-GNlpcCSHC 402
Cdd:pfam16124 4 VVRLRFLIEQSEADEERKEVELQ---KLQAM--VAYCENTTDCRRKQLLRYFGEEFDSEPcGN---CDNC 65
|
|
| PRK02362 |
PRK02362 |
ATP-dependent DNA helicase; |
186-269 |
3.69e-05 |
|
ATP-dependent DNA helicase;
Pssm-ID: 235032 [Multi-domain] Cd Length: 737 Bit Score: 46.10 E-value: 3.69e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 186 AKELAGEIKSKTSsradFYHGGLESGDRILIQQQFIHNQLDVICCTNAFGMGVDKPDIRYVIHFHLPQTAEAFMQEI--- 262
Cdd:PRK02362 295 SKDLADCVAKGAA----FHHAGLSREHRELVEDAFRDRLIKVISSTPTLAAGLNLPARRVIIRDYRRYDGGAGMQPIpvl 370
|
90
....*....|...
gi 124442020 263 ------GRAGRDG 269
Cdd:PRK02362 371 eyhqmaGRAGRPG 383
|
|
| COG1202 |
COG1202 |
Superfamily II helicase, archaea-specific [Replication, recombination and repair]; |
156-267 |
4.40e-05 |
|
Superfamily II helicase, archaea-specific [Replication, recombination and repair];
Pssm-ID: 440815 [Multi-domain] Cd Length: 790 Bit Score: 45.65 E-value: 4.40e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 156 ADTAEKIDRVIQLVEN---------LQGPGIVYCPTRKWAKELAgeikSKTSSRADFYHGGLESGDRILIQQQFIHNQLD 226
Cdd:COG1202 401 ADGREKIRIINKLVKRefdtksskgYRGQTIIFTNSRRRCHEIA----RALGYKAAPYHAGLDYGERKKVERRFADQELA 476
|
90 100 110 120
....*....|....*....|....*....|....*....|....*....
gi 124442020 227 VICCTNAFGMGVDKPDIRyVIHFHL--------PQtaeAFMQEIGRAGR 267
Cdd:COG1202 477 AVVTTAALAAGVDFPASQ-VIFDSLamgiewlsVQ---EFHQMLGRAGR 521
|
|
| PRK01172 |
PRK01172 |
ATP-dependent DNA helicase; |
48-269 |
3.44e-04 |
|
ATP-dependent DNA helicase;
Pssm-ID: 100801 [Multi-domain] Cd Length: 674 Bit Score: 42.95 E-value: 3.44e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 48 IHRYKFLYLSPEALQS-----PYVLEKlksvpISLFVIDEAHCIsewGHDFR-PDYSKLGQLRKKLgHPPVLALTATATK 121
Cdd:PRK01172 109 IKRYDVVILTSEKADSlihhdPYIIND-----VGLIVADEIHII---GDEDRgPTLETVLSSARYV-NPDARILALSATV 179
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 122 ETLQDVMNLLELQHAVRHLNSVN-RPNIALRVENAADTAEK----IDRVIQLVENLQGPGIVYCPTRKWAKELA------ 190
Cdd:PRK01172 180 SNANELAQWLNASLIKSNFRPVPlKLGILYRKRLILDGYERsqvdINSLIKETVNDGGQVLVFVSSRKNAEDYAemliqh 259
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 191 -GEIKSKTSSRAD-----------------FYHGGLESGDRILIQQQFIHNQLDVICCTNAFGMGVDKP-------DI-R 244
Cdd:PRK01172 260 fPEFNDFKVSSENnnvyddslnemlphgvaFHHAGLSNEQRRFIEEMFRNRYIKVIVATPTLAAGVNLParlvivrDItR 339
|
250 260
....*....|....*....|....*
gi 124442020 245 YVIHFHLPQTAEAFMQEIGRAGRDG 269
Cdd:PRK01172 340 YGNGGIRYLSNMEIKQMIGRAGRPG 364
|
|
| SF2_C_LHR |
cd18796 |
C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a ... |
225-277 |
1.00e-03 |
|
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: 39.17 E-value: 1.00e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|...
gi 124442020 225 LDVICCTNAFGMGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGKPSVSILL 277
Cdd:cd18796 95 LKVVVATSSLELGIDIGDVDLVIQIGSPKSVARLLQRLGRSGHRPGAASKGRL 147
|
|
| PRK10590 |
PRK10590 |
ATP-dependent RNA helicase RhlE; Provisional |
177-267 |
3.78e-03 |
|
ATP-dependent RNA helicase RhlE; Provisional
Pssm-ID: 236722 [Multi-domain] Cd Length: 456 Bit Score: 39.41 E-value: 3.78e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 177 IVYCPTRKWAKELAgEIKSKTSSRADFYHGGLESGDRILIQQQFIHNQLDVICCTNAFGMGVDKPDIRYVIHFHLPQTAE 256
Cdd:PRK10590 249 LVFTRTKHGANHLA-EQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGLDIEELPHVVNYELPNVPE 327
|
90
....*....|.
gi 124442020 257 AFMQEIGRAGR 267
Cdd:PRK10590 328 DYVHRIGRTGR 338
|
|
| SF2_C_EcoAI-like |
cd18799 |
C-terminal helicase domain of EcoAI HsdR-like restriction enzyme family helicases; This family ... |
176-283 |
4.94e-03 |
|
C-terminal helicase domain of EcoAI HsdR-like restriction enzyme family helicases; This family is composed of helicase restriction enzymes, including the HsdR subunit of restriction-modification enzymes such as Escherichia coli type I restriction enzyme EcoAI R protein (R.EcoAI). The EcoAI enzyme recognizes 5'-GAGN(7)GTCA-3'. The HsdR or R subunit is required for both nuclease and ATPase activities, but not for modification. These proteins 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: 350186 [Multi-domain] Cd Length: 116 Bit Score: 36.77 E-value: 4.94e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124442020 176 GIVYCPTRKWAKELAGEIKSKTSSRADFYHG--GLESGDRILIQQQFIHNQLDVICCTNAFGMGVDKPDIRYVIHFHLPQ 253
Cdd:cd18799 9 TLIFCVSIEHAEFMAEAFNEAGIDAVALNSDysDRERGDEALILLFFGELKPPILVTVDLLTTGVDIPEVDNVVFLRPTE 88
|
90 100 110
....*....|....*....|....*....|..
gi 124442020 254 TAEAFMQEIGRAGR--DGKPSVSILlrapgDF 283
Cdd:cd18799 89 SRTLFLQMLGRGLRlhEGKDFFTIL-----DF 115
|
|
| PRK11634 |
PRK11634 |
ATP-dependent RNA helicase DeaD; Provisional |
224-276 |
6.79e-03 |
|
ATP-dependent RNA helicase DeaD; Provisional
Pssm-ID: 236941 [Multi-domain] Cd Length: 629 Bit Score: 38.68 E-value: 6.79e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|...
gi 124442020 224 QLDVICCTNAFGMGVDKPDIRYVIHFHLPQTAEAFMQEIGRAGRDGKPSVSIL 276
Cdd:PRK11634 295 RLDILIATDVAARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRALL 347
|
|
| |
