|
Name |
Accession |
Description |
Interval |
E-value |
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
8-464 |
4.17e-85 |
|
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440273 [Multi-domain] Cd Length: 514 Bit Score: 270.69 E-value: 4.17e-85
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 8 RQIKENFPYQPTLEQEIAVkslsEFLLSTlaDEVFILRGYAGTGKTSLVGALVKTMDQLQQKSVLLAPTGRAAKVFSAYA 87
Cdd:COG0507 115 AALEPRAGITLSDEQREAV----ALALTT--RRVSVLTGGAGTGKTTTLRALLAALEALGLRVALAAPTGKAAKRLSEST 188
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 88 GHPAFTIHKKIYRQQSFsnelSNFSINDN--LATNTLFIVDEASMISNeglsgsifgtgRLLDDLVQFVYSGqGCRLLLM 165
Cdd:COG0507 189 GIEARTIHRLLGLRPDS----GRFRHNRDnpLTPADLLVVDEASMVDT-----------RLMAALLEALPRA-GARLILV 252
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 166 GDTAQLPPVGEElspALFTDALKGYGLEVreVDLTQVVRQVQESGILWNATQLRQLIAEDecySLAKikvtGFPDIKVVP 245
Cdd:COG0507 253 GDPDQLPSVGAG---AVLRDLIESGTVPV--VELTEVYRQADDSRIIELAHAIREGDAPE---ALNA----RYADVVFVE 320
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 246 ---GTELIDELNNCYDH--DGMDETIVICRSNKRANLYNNGIRAQIL-----------WREDELNTGDMLMVAKNNYYWt 309
Cdd:COG0507 321 aedAEEAAEAIVELYADrpAGGEDIQVLAPTNAGVDALNQAIREALNpagelerelaeDGELELYVGDRVMFTRNDYDL- 399
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 310 erykemdFIANGEIAIVRRVRRTREmygfrfaEVTLRFPDQNDFELDANLLldtlhsdapalpkvdndrlfytvledyid 389
Cdd:COG0507 400 -------GVFNGDIGTVLSIDEDEG-------RLTVRFDGREIVTYDPSEL----------------------------- 436
|
410 420 430 440 450 460 470
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2469828462 390 ipnkrdrmkkmkadphynaLQVKYAYAVTCHKAQGGQWQNVFLDQGYMTDEYLTPdyfRWLYTAFTRATKTLYLV 464
Cdd:COG0507 437 -------------------DQLELAYAITVHKSQGSTFDRVILVLPSEHSPLLSR---ELLYTALTRARELLTLV 489
|
|
| DEXSc_RecD-like |
cd17933 |
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ... |
21-175 |
5.95e-38 |
|
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350691 [Multi-domain] Cd Length: 155 Bit Score: 135.76 E-value: 5.95e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 21 EQEIAVKSLsefllstLADEVFILRGYAGTGKTSLVGALVKTMDQLQQKSVLLAPTGRAAKVFSAYAGHPAFTIHKKIYR 100
Cdd:cd17933 1 EQKAAVRLV-------LRNRVSVLTGGAGTGKTTTLKALLAALEAEGKRVVLAAPTGKAAKRLSESTGIEASTIHRLLGI 73
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2469828462 101 QQSFSNELSNfsiNDNLATNTLFIVDEASMISNeglsgsifgtgRLLDDLVQFVYSgqGCRLLLMGDTAQLPPVG 175
Cdd:cd17933 74 NPGGGGFYYN---EENPLDADLLIVDEASMVDT-----------RLMAALLSAIPA--GARLILVGDPDQLPSVG 132
|
|
| AAA_30 |
pfam13604 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
21-219 |
2.97e-28 |
|
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. There is a Walker A and Walker B.
Pssm-ID: 433343 [Multi-domain] Cd Length: 191 Bit Score: 110.73 E-value: 2.97e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 21 EQEIAVKslsEFLLSTlaDEVFILRGYAGTGKTSLVGALVKTMDQLQQKSVLLAPTGRAAKVFSAYAGHPAFTIHKKIYR 100
Cdd:pfam13604 5 EQAAAVR---ALLTSG--DRVAVLVGPAGTGKTTALKALREAWEAAGYRVIGLAPTGRAAKVLGEELGIPADTIAKLLHR 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 101 QQSFsnelsnfsinDNLATNTLFIVDEASMISNeglsgsifgtgRLLDDLVQFVySGQGCRLLLMGDTAQLPPVGeelSP 180
Cdd:pfam13604 80 LGGR----------AGLDPGTLLIVDEAGMVGT-----------RQMARLLKLA-EDAGARVILVGDPRQLPSVE---AG 134
|
170 180 190
....*....|....*....|....*....|....*....
gi 2469828462 181 ALFTDALKGyglEVREVDLTQVVRQvQESGILWNATQLR 219
Cdd:pfam13604 135 GAFRDLLAA---GIGTAELTEIVRQ-RDPWQRAASLALR 169
|
|
| recD_rel |
TIGR01448 |
helicase, putative, RecD/TraA family; This model describes a family similar to RecD, the ... |
5-468 |
3.28e-25 |
|
helicase, putative, RecD/TraA family; This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD. [Unknown function, Enzymes of unknown specificity]
Pssm-ID: 273632 [Multi-domain] Cd Length: 720 Bit Score: 109.10 E-value: 3.28e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 5 YLERQIKENFPYQPTLEQE---IAVKSLSEFLLS---------TLADEVFILRGYAGTGKTSLVGALVKTMDQLQ--QKS 70
Cdd:TIGR01448 292 SHIRRLLATSPAIGAINDQehiWEVEKKLRKGLSeeqkqaldtAIQHKVVILTGGPGTGKTTITRAIIELAEELGglLPV 371
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 71 VLLAPTGRAAKVFSAYAGHPAFTIHKKI-YRQQSFSnelsnFSINDNLATNTLFIVDEASMISNEglsgsifgtgrLLDD 149
Cdd:TIGR01448 372 GLAAPTGRAAKRLGEVTGLTASTIHRLLgYGPDTFR-----HNHLEDPIDCDLLIVDESSMMDTW-----------LALS 435
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 150 LVQFVYSgqGCRLLLMGDTAQLPPVGEELspaLFTDALKGYGLEVreVDLTQVVRQVQESGILWNATQLRQLIAEDECYS 229
Cdd:TIGR01448 436 LLAALPD--HARLLLVGDTDQLPSVGPGQ---VLKDLILSQAIPV--TRLTKVYRQAAGSPIITLAHGILHGEAPAWGDF 508
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 230 LAKIKVTGFPDIKVVPGTELIDELNNCYDHDGMD-ETIVICRSNKRANLynnGIRA--QILwrEDELN------------ 294
Cdd:TIGR01448 509 KFLNLTRSEPEGAARHIPLMVEKIVGMARVGGIPgADIQVLAPMYKGPL---GIDAlnQHL--QALLNpyqkgqggieia 583
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 295 -----TGDMLMVAKNNYYwterykemDFIANGEIAIVRRVRRTREMygfRFAEVTLRFpDQNDFELDANLLLDTLHsdap 369
Cdd:TIGR01448 584 egeyrKGDRVMQTKNDYN--------NEIFNGDLGMIVKIEGAKQG---KKDQVVVDF-DGNEVELTRAELFNLTL---- 647
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 370 alpkvdndrlfytvledyidipnkrdrmkkmkadphynalqvkyAYAVTCHKAQGGQWQNVFLDqgymtdeyLTPDYFRW 449
Cdd:TIGR01448 648 --------------------------------------------AYATSIHKSQGSEFPTVILP--------IHTAHMRM 675
|
490 500
....*....|....*....|....
gi 2469828462 450 L-----YTAFTRATKTLYLVNYPK 468
Cdd:TIGR01448 676 LyrnllYTALTRAKKRVILVGSAE 699
|
|
| PRK13709 |
PRK13709 |
conjugal transfer nickase/helicase TraI; Provisional |
39-174 |
1.58e-10 |
|
conjugal transfer nickase/helicase TraI; Provisional
Pssm-ID: 237478 [Multi-domain] Cd Length: 1747 Bit Score: 63.66 E-value: 1.58e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 39 DEVFILRGYAGTGKTSLVGALVKTMDQLQQKS----VLLAPTGRAAKVFSAyAGHPAFTIHKKIY--RQQSFSNELSNFS 112
Cdd:PRK13709 984 DRFTVVQGYAGVGKTTQFRAVMSAVNTLPESErprvVGLGPTHRAVGEMRS-AGVDAQTLASFLHdtQLQQRSGETPDFS 1062
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2469828462 113 indnlatNTLFIVDEASMISNEGLSgsifgtgrlldDLVQFVYSGQGcRLLLMGDTAQLPPV 174
Cdd:PRK13709 1063 -------NTLFLLDESSMVGNTDMA-----------RAYALIAAGGG-RAVSSGDTDQLQAI 1105
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
8-464 |
4.17e-85 |
|
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440273 [Multi-domain] Cd Length: 514 Bit Score: 270.69 E-value: 4.17e-85
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 8 RQIKENFPYQPTLEQEIAVkslsEFLLSTlaDEVFILRGYAGTGKTSLVGALVKTMDQLQQKSVLLAPTGRAAKVFSAYA 87
Cdd:COG0507 115 AALEPRAGITLSDEQREAV----ALALTT--RRVSVLTGGAGTGKTTTLRALLAALEALGLRVALAAPTGKAAKRLSEST 188
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 88 GHPAFTIHKKIYRQQSFsnelSNFSINDN--LATNTLFIVDEASMISNeglsgsifgtgRLLDDLVQFVYSGqGCRLLLM 165
Cdd:COG0507 189 GIEARTIHRLLGLRPDS----GRFRHNRDnpLTPADLLVVDEASMVDT-----------RLMAALLEALPRA-GARLILV 252
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 166 GDTAQLPPVGEElspALFTDALKGYGLEVreVDLTQVVRQVQESGILWNATQLRQLIAEDecySLAKikvtGFPDIKVVP 245
Cdd:COG0507 253 GDPDQLPSVGAG---AVLRDLIESGTVPV--VELTEVYRQADDSRIIELAHAIREGDAPE---ALNA----RYADVVFVE 320
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 246 ---GTELIDELNNCYDH--DGMDETIVICRSNKRANLYNNGIRAQIL-----------WREDELNTGDMLMVAKNNYYWt 309
Cdd:COG0507 321 aedAEEAAEAIVELYADrpAGGEDIQVLAPTNAGVDALNQAIREALNpagelerelaeDGELELYVGDRVMFTRNDYDL- 399
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 310 erykemdFIANGEIAIVRRVRRTREmygfrfaEVTLRFPDQNDFELDANLLldtlhsdapalpkvdndrlfytvledyid 389
Cdd:COG0507 400 -------GVFNGDIGTVLSIDEDEG-------RLTVRFDGREIVTYDPSEL----------------------------- 436
|
410 420 430 440 450 460 470
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2469828462 390 ipnkrdrmkkmkadphynaLQVKYAYAVTCHKAQGGQWQNVFLDQGYMTDEYLTPdyfRWLYTAFTRATKTLYLV 464
Cdd:COG0507 437 -------------------DQLELAYAITVHKSQGSTFDRVILVLPSEHSPLLSR---ELLYTALTRARELLTLV 489
|
|
| DEXSc_RecD-like |
cd17933 |
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ... |
21-175 |
5.95e-38 |
|
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350691 [Multi-domain] Cd Length: 155 Bit Score: 135.76 E-value: 5.95e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 21 EQEIAVKSLsefllstLADEVFILRGYAGTGKTSLVGALVKTMDQLQQKSVLLAPTGRAAKVFSAYAGHPAFTIHKKIYR 100
Cdd:cd17933 1 EQKAAVRLV-------LRNRVSVLTGGAGTGKTTTLKALLAALEAEGKRVVLAAPTGKAAKRLSESTGIEASTIHRLLGI 73
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2469828462 101 QQSFSNELSNfsiNDNLATNTLFIVDEASMISNeglsgsifgtgRLLDDLVQFVYSgqGCRLLLMGDTAQLPPVG 175
Cdd:cd17933 74 NPGGGGFYYN---EENPLDADLLIVDEASMVDT-----------RLMAALLSAIPA--GARLILVGDPDQLPSVG 132
|
|
| AAA_30 |
pfam13604 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
21-219 |
2.97e-28 |
|
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. There is a Walker A and Walker B.
Pssm-ID: 433343 [Multi-domain] Cd Length: 191 Bit Score: 110.73 E-value: 2.97e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 21 EQEIAVKslsEFLLSTlaDEVFILRGYAGTGKTSLVGALVKTMDQLQQKSVLLAPTGRAAKVFSAYAGHPAFTIHKKIYR 100
Cdd:pfam13604 5 EQAAAVR---ALLTSG--DRVAVLVGPAGTGKTTALKALREAWEAAGYRVIGLAPTGRAAKVLGEELGIPADTIAKLLHR 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 101 QQSFsnelsnfsinDNLATNTLFIVDEASMISNeglsgsifgtgRLLDDLVQFVySGQGCRLLLMGDTAQLPPVGeelSP 180
Cdd:pfam13604 80 LGGR----------AGLDPGTLLIVDEAGMVGT-----------RQMARLLKLA-EDAGARVILVGDPRQLPSVE---AG 134
|
170 180 190
....*....|....*....|....*....|....*....
gi 2469828462 181 ALFTDALKGyglEVREVDLTQVVRQvQESGILWNATQLR 219
Cdd:pfam13604 135 GAFRDLLAA---GIGTAELTEIVRQ-RDPWQRAASLALR 169
|
|
| recD_rel |
TIGR01448 |
helicase, putative, RecD/TraA family; This model describes a family similar to RecD, the ... |
5-468 |
3.28e-25 |
|
helicase, putative, RecD/TraA family; This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD. [Unknown function, Enzymes of unknown specificity]
Pssm-ID: 273632 [Multi-domain] Cd Length: 720 Bit Score: 109.10 E-value: 3.28e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 5 YLERQIKENFPYQPTLEQE---IAVKSLSEFLLS---------TLADEVFILRGYAGTGKTSLVGALVKTMDQLQ--QKS 70
Cdd:TIGR01448 292 SHIRRLLATSPAIGAINDQehiWEVEKKLRKGLSeeqkqaldtAIQHKVVILTGGPGTGKTTITRAIIELAEELGglLPV 371
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 71 VLLAPTGRAAKVFSAYAGHPAFTIHKKI-YRQQSFSnelsnFSINDNLATNTLFIVDEASMISNEglsgsifgtgrLLDD 149
Cdd:TIGR01448 372 GLAAPTGRAAKRLGEVTGLTASTIHRLLgYGPDTFR-----HNHLEDPIDCDLLIVDESSMMDTW-----------LALS 435
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 150 LVQFVYSgqGCRLLLMGDTAQLPPVGEELspaLFTDALKGYGLEVreVDLTQVVRQVQESGILWNATQLRQLIAEDECYS 229
Cdd:TIGR01448 436 LLAALPD--HARLLLVGDTDQLPSVGPGQ---VLKDLILSQAIPV--TRLTKVYRQAAGSPIITLAHGILHGEAPAWGDF 508
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 230 LAKIKVTGFPDIKVVPGTELIDELNNCYDHDGMD-ETIVICRSNKRANLynnGIRA--QILwrEDELN------------ 294
Cdd:TIGR01448 509 KFLNLTRSEPEGAARHIPLMVEKIVGMARVGGIPgADIQVLAPMYKGPL---GIDAlnQHL--QALLNpyqkgqggieia 583
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 295 -----TGDMLMVAKNNYYwterykemDFIANGEIAIVRRVRRTREMygfRFAEVTLRFpDQNDFELDANLLLDTLHsdap 369
Cdd:TIGR01448 584 egeyrKGDRVMQTKNDYN--------NEIFNGDLGMIVKIEGAKQG---KKDQVVVDF-DGNEVELTRAELFNLTL---- 647
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 370 alpkvdndrlfytvledyidipnkrdrmkkmkadphynalqvkyAYAVTCHKAQGGQWQNVFLDqgymtdeyLTPDYFRW 449
Cdd:TIGR01448 648 --------------------------------------------AYATSIHKSQGSEFPTVILP--------IHTAHMRM 675
|
490 500
....*....|....*....|....
gi 2469828462 450 L-----YTAFTRATKTLYLVNYPK 468
Cdd:TIGR01448 676 LyrnllYTALTRAKKRVILVGSAE 699
|
|
| UvrD_C_2 |
pfam13538 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
413-464 |
6.66e-19 |
|
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety of helicase enzymes. This domain has a AAA-like structural fold.
Pssm-ID: 463913 [Multi-domain] Cd Length: 52 Bit Score: 79.93 E-value: 6.66e-19
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 2469828462 413 YAYAVTCHKAQGGQWQNVFLDQGYMTDEYLTPDYFRWLYTAFTRATKTLYLV 464
Cdd:pfam13538 1 LAYALTVHKAQGSEFPAVFLVDPDLTAHYHSMLRRRLLYTAVTRARKKLVLV 52
|
|
| AAA_19 |
pfam13245 |
AAA domain; |
22-175 |
1.76e-18 |
|
AAA domain;
Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 81.50 E-value: 1.76e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 22 QEIAVKSlsefllsTLADEVFILRGYAGTGKTSL---VGALVKTMDQLQQKSVLLAPTGRAAKVFSAYAGHPAFTIHKKI 98
Cdd:pfam13245 1 QREAVRT-------ALPSKVVLLTGGPGTGKTTTirhIVALLVALGGVSFPILLAAPTGRAAKRLSERTGLPASTIHRLL 73
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2469828462 99 YRQQSFSNELSNFsiNDNLATNTLFIVDEASMIsneglsgSIFGTGRLLDDLVqfvysgQGCRLLLMGDTAQLPPVG 175
Cdd:pfam13245 74 GFDDLEAGGFLRD--EEEPLDGDLLIVDEFSMV-------DLPLAYRLLKALP------DGAQLLLVGDPDQLPSVG 135
|
|
| recD |
TIGR01447 |
exodeoxyribonuclease V, alpha subunit; This family describes the exodeoxyribonuclease V alpha ... |
4-464 |
1.42e-11 |
|
exodeoxyribonuclease V, alpha subunit; This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273631 [Multi-domain] Cd Length: 582 Bit Score: 66.71 E-value: 1.42e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 4 NYLERQIKEN-FPYQPTLEQEIAVKSLsefllsTLADEVFILRGYAGTGKTSLV----GALVKT-MDQLQQKSVLLAPTG 77
Cdd:TIGR01447 129 RTAPSAILENlFPLLNEQNWRKTAVAL------ALKSNFSLITGGPGTGKTTTVarllLALVKQsPKQGKLRIALAAPTG 202
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 78 RAA----KVFSAYAGHPAF-------------TIHK--KIYrqqsFSNElSNFSINDNLATNTLFIVDEASMISNEglsg 138
Cdd:TIGR01447 203 KAAarlaESLRKAVKNLAAaealiaalpseavTIHRllGIK----PDTK-RFRHHERNPLPLDVLVVDEASMVDLP---- 273
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 139 sifgtgrLLDDLVQFVysGQGCRLLLMGDTAQLPPVGE------------ELSPALFTDALK-----GYGLEVREVDLTQ 201
Cdd:TIGR01447 274 -------LMAKLLKAL--PPNTKLILLGDKNQLPSVEAgavlgdlcelasIGKSILYALCKKinsktRNPLSDNVCFLKT 344
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 202 VVRQVQESGIlwnaTQLRQLI-AEDECYSLAKIKVTGFPDIKVVPGTE-LIDELNN-CYDH-----------------DG 261
Cdd:TIGR01447 345 SHRFGKDSGI----GQLAKAInSGDIEAVLNNLRSGQLIEFEFLNSKEdAIERLKNlYVKYrtflqklaalsdakeilET 420
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 262 MDETIVIC--RS--------NKRANLYNNGIRAQILWREDELntGDMLMVAKNNYYWTerykemdfIANGEIAIVRRvRR 331
Cdd:TIGR01447 421 FDRLRLLTalRDgpfgvlglNRRIEQELQEKYFDPDEEGWYI--GRPIMVTENDYTLG--------LFNGDIGVLLR-DP 489
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 332 TREMYgfrfaeVTLRFPDQNDFeldanllldtlhsdapalpkVDNDRLfytvledyidiPNkrdrmkkmkadphynalqV 411
Cdd:TIGR01447 490 DGILT------VWFHFADGSKA--------------------VLPSRL-----------PN------------------Y 514
|
490 500 510 520 530
....*....|....*....|....*....|....*....|....*....|....*
gi 2469828462 412 KYAYAVTCHKAQGGQWQN--VFLDQGYmtDEYLTPDYfrwLYTAFTRATKTLYLV 464
Cdd:TIGR01447 515 ETAFAMTVHKSQGSEFDHviLILPNGN--SPVLTREL---LYTGITRAKDQLSVW 564
|
|
| SF1_C_RecD |
cd18809 |
C-terminal helicase domain of RecD family helicases; RecD is a member of the RecBCD (EC 3.1.11. ... |
414-464 |
1.12e-10 |
|
C-terminal helicase domain of RecD family helicases; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD family helicases are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.
Pssm-ID: 350196 [Multi-domain] Cd Length: 80 Bit Score: 57.57 E-value: 1.12e-10
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|.
gi 2469828462 414 AYAVTCHKAQGGQWQNVFLDQGyMTDEYLTPdyfRWLYTAFTRATKTLYLV 464
Cdd:cd18809 33 AYAMTIHKSQGSEFDRVIVVLP-TSHPMLSR---GLLYTALTRARKLLTLV 79
|
|
| PRK13709 |
PRK13709 |
conjugal transfer nickase/helicase TraI; Provisional |
39-174 |
1.58e-10 |
|
conjugal transfer nickase/helicase TraI; Provisional
Pssm-ID: 237478 [Multi-domain] Cd Length: 1747 Bit Score: 63.66 E-value: 1.58e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 39 DEVFILRGYAGTGKTSLVGALVKTMDQLQQKS----VLLAPTGRAAKVFSAyAGHPAFTIHKKIY--RQQSFSNELSNFS 112
Cdd:PRK13709 984 DRFTVVQGYAGVGKTTQFRAVMSAVNTLPESErprvVGLGPTHRAVGEMRS-AGVDAQTLASFLHdtQLQQRSGETPDFS 1062
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2469828462 113 indnlatNTLFIVDEASMISNEGLSgsifgtgrlldDLVQFVYSGQGcRLLLMGDTAQLPPV 174
Cdd:PRK13709 1063 -------NTLFLLDESSMVGNTDMA-----------RAYALIAAGGG-RAVSSGDTDQLQAI 1105
|
|
| TraI_TIGR |
TIGR02760 |
conjugative transfer relaxase protein TraI; This protein is a component of the relaxosome ... |
33-171 |
1.68e-10 |
|
conjugative transfer relaxase protein TraI; This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Pssm-ID: 274285 [Multi-domain] Cd Length: 1960 Bit Score: 63.77 E-value: 1.68e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 33 LLSTLADEVFILRGYAGTGKTSLVGALVKTMDQL---QQKSVL-LAPTGRAAKVFSAyAGHPAFTIhkkiyrqQSFSNEL 108
Cdd:TIGR02760 1030 LIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAfesEQLQVIgLAPTHEAVGELKS-AGVQAQTL-------DSFLTDI 1101
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2469828462 109 SNFSINDNLATNTLFIVDEASMISNEglsgsifgtgrLLDDLVQFVYSGQGcRLLLMGDTAQL 171
Cdd:TIGR02760 1102 SLYRNSGGDFRNTLFILDESSMVSNF-----------QLTHATELVQKSGS-RAVSLGDIAQL 1152
|
|
| DEXSc_Pif1_like |
cd18037 |
DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like ... |
41-204 |
4.36e-09 |
|
DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like helicases involved in maintaining genome stability through unwinding double-stranded DNAs (dsDNAs), DNA/RNA hybrids, and G quadruplex (G4) structures. The members of Pif1 helicase subfamily studied so far all appear to contribute to telomere maintenance. Pif1 is a member of the DEAD-like helicases superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350795 [Multi-domain] Cd Length: 183 Bit Score: 55.72 E-value: 4.36e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 41 VFIlRGYAGTGKTSLVGALVKTMDQLQQKSVLLAPTGRAA-----KVFSAYAGHPAFTIHK-KIYRQQSFSNELSNfsin 114
Cdd:cd18037 15 VFF-TGSAGTGKSYLLRRIIRALPSRPKRVAVTASTGIAAcniggTTLHSFAGIGLGSEPAeDLLERVKRSPYLVQ---- 89
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 115 dNLATNTLFIVDEASMISNEGLSGsifgtgrlLDDLVQFVYSGQ----GCRLLLMGDTAQLPPVGEE-LSPALFTDALKG 189
Cdd:cd18037 90 -RWRKCDVLIIDEISMLDADLFDK--------LDRVAREVRGSDkpfgGIQLILCGDFLQLPPVTKNsERQAFFFRGDQQ 160
|
170 180
....*....|....*....|...
gi 2469828462 190 YGLEVRE--------VDLTQVVR 204
Cdd:cd18037 161 FCFEAKSwercifltVELTKVFR 183
|
|
| PRK14712 |
PRK14712 |
conjugal transfer nickase/helicase TraI; Provisional |
27-162 |
1.40e-06 |
|
conjugal transfer nickase/helicase TraI; Provisional
Pssm-ID: 237796 [Multi-domain] Cd Length: 1623 Bit Score: 51.02 E-value: 1.40e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 27 KSLSEFLLSTlADEVFILRGYAGTGKTSLVGALVKTMDQLQQ----KSVLLAPTGRAAKVFSAyAGHPAFTIHKKIY--R 100
Cdd:PRK14712 841 RAATRMILET-SDRFTVVQGYAGVGKTTQFRAVMSAVNMLPEserpRVVGLGPTHRAVGEMRS-AGVDAQTLASFLHdtQ 918
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 101 QQSFSNELSNFSindnlatNTLFIVDEASMISNEGLSGS----IFGTGRLL----DDLVQFVYSGQGCRL 162
Cdd:PRK14712 919 LQQRSGETPDFS-------NTLFLLDESSMVGNTDMARAyaliAAGGGRAVasgdTDQLQAIAPGQPFRL 981
|
|
| TraI_TIGR |
TIGR02760 |
conjugative transfer relaxase protein TraI; This protein is a component of the relaxosome ... |
8-172 |
7.11e-06 |
|
conjugative transfer relaxase protein TraI; This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Pssm-ID: 274285 [Multi-domain] Cd Length: 1960 Bit Score: 48.75 E-value: 7.11e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 8 RQIKENFPYQPTLEQEIAV---KSLSEFLLSTlaDEVFILRGYAGTGKTSLVGALVKTMDQLQQKSVLLAPTGRAAKVFS 84
Cdd:TIGR02760 414 GALRVIVSKQKLSEFALSPsnkDAVSTLFTST--KRFIIINGFGGTGSTEIAQLLLHLASEQGYEIQIITAGSLSAQELR 491
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 85 AYAGHPAFTIHKKIYR--QQSFSNELSNFSINDNLATN-TLFIVDEASMISNEGLSGSIFGTGRllddlvqfvysgQGCR 161
Cdd:TIGR02760 492 QKIPRLASTFITWVKNlfNDDQDHTVQGLLDKSSPFSNkDIFVVDEANKLSNNELLKLIDKAEQ------------HNSK 559
|
170
....*....|.
gi 2469828462 162 LLLMGDTAQLP 172
Cdd:TIGR02760 560 LILLNDSAQRQ 570
|
|
| DEXXQc_DNA2 |
cd18041 |
DEXXQ-box helicase domain of DNA2; DNA2 (DNA Replication Helicase/Nuclease 2) possesses ... |
21-174 |
9.16e-06 |
|
DEXXQ-box helicase domain of DNA2; DNA2 (DNA Replication Helicase/Nuclease 2) possesses different enzymatic activities, such as single-stranded DNA (ssDNA)-dependent ATPase, 5-3 helicase, and endonuclease activities, and is involved in DNA replication and DNA repair in the nucleus and mitochondrion. It is involved in Okazaki fragment processing by cleaving long flaps that escape FEN1: flaps that are longer than 27 nucleotides are coated by replication protein A complex (RPA), leading to recruit DNA2 which cleaves the flap until it is too short to bind RPA and becomes a substrate for FEN1. It is also involved in 5-end resection of DNA during double-strand break (DSB) repair; it is recruited by BLM and mediates the cleavage of 5-ssDNA, while the 3-ssDNA cleavage is prevented by the presence of RPA. DNA2 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350799 [Multi-domain] Cd Length: 203 Bit Score: 46.46 E-value: 9.16e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 21 EQEIAVKSlsefllSTLADEVFILRGYAGTGKTSLVGALVKTMdQLQQKSVLLA-------------------PT---GR 78
Cdd:cd18041 5 DQRQAIKK------VLNAKDYALILGMPGTGKTTTIAALVRIL-VALGKSVLLTsythsavdnillklkkfgvNFlrlGR 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 79 AAKVfsayagHPAFTIHKKIYRQQSFSN--ELSNF------------SINDNLATNTLF---IVDEASMISNEGLSGSIF 141
Cdd:cd18041 78 LKKI------HPDVQEFTLEAILKSCKSveELESKyesvsvvattclGINHPIFRRRTFdycIVDEASQITLPICLGPLR 151
|
170 180 190
....*....|....*....|....*....|...
gi 2469828462 142 GTGRllddlvqFVysgqgcrllLMGDTAQLPPV 174
Cdd:cd18041 152 LAKK-------FV---------LVGDHYQLPPL 168
|
|
| DEXXQc_Upf1-like |
cd17934 |
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, ... |
41-205 |
8.13e-05 |
|
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), coronavirus Nsp13, and similar proteins. They belong to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 438708 [Multi-domain] Cd Length: 121 Bit Score: 42.22 E-value: 8.13e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 41 VFILRGYAGTGKTSLVGALVKT-MDQLQQKSVLL-APTgraakvfsayaghpaftihkkiyrqqsfsnelsnfsindNLA 118
Cdd:cd17934 1 ISLIQGPPGTGKTTTIAAIVLQlLKGLRGKRVLVtAQS---------------------------------------NVA 41
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 119 TNTLF--IVDEASMISN-EGLSGSIFGTgrllddlvqfvysgqgcRLLLMGDTAQLPPVGEELSPALFTDALKGYGLEVR 195
Cdd:cd17934 42 VDNVDvvIIDEASQITEpELLIALIRAK-----------------KVVLVGDPKQLPPVVQEDHAALLGLSFILSLLLLF 104
|
170
....*....|
gi 2469828462 196 EVDLTQVVRQ 205
Cdd:cd17934 105 RLLLPGSPKV 114
|
|
| PRK13826 |
PRK13826 |
Dtr system oriT relaxase; Provisional |
46-174 |
2.49e-03 |
|
Dtr system oriT relaxase; Provisional
Pssm-ID: 237524 [Multi-domain] Cd Length: 1102 Bit Score: 40.53 E-value: 2.49e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2469828462 46 GYAGTGKTSLVGALVKTMDQLQQKSVLLAPTGRAAKVFSAYAGHPAFTIHkkiyrqqsfSNELSNFSINDNLATNTLFIV 125
Cdd:PRK13826 404 GRAGAGKTTMMKAAREAWEAAGYRVVGGALAGKAAEGLEKEAGIQSRTLS---------SWELRWNQGRDQLDNKTVFVL 474
|
90 100 110 120
....*....|....*....|....*....|....*....|....*....
gi 2469828462 126 DEASMISNEGLSGsifgtgrllddLVQFVySGQGCRLLLMGDTAQLPPV 174
Cdd:PRK13826 475 DEAGMVASRQMAL-----------FVEAV-TRAGAKLVLVGDPEQLQPI 511
|
|
| |
