|
Name |
Accession |
Description |
Interval |
E-value |
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
397-813 |
2.02e-67 |
|
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: 233.72 E-value: 2.02e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 397 ELLLTREDVPEHIRALTSHDVLDVETELVT--------RLAARAEQPATPSWIGLLA----------FGRELDPAQRRVV 458
Cdd:COG0507 54 RLLGVAEDIEAALAALVESGPLVLDGRRYLtrlleaeqRLARRLRRLARPALDEADVeaalaaleprAGITLSDEQREAV 133
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 459 AALTGTGPLLVIEGAAGAGKTSTLDVARRLVEIRSHRLVVATPTLKAARAAEAQLGTDAFSaawlVHQH-GYRWDTDGrw 537
Cdd:COG0507 134 ALALTTRRVSVLTGGAGTGKTTTLRALLAALEALGLRVALAAPTGKAAKRLSESTGIEART----IHRLlGLRPDSGR-- 207
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 538 trtnAQPDTRARLRPGDVLLVDEAGMLDQDTARALLTIADQADARVAFVGDRHQLPAVGRGGVLDHAARWARPEACLaLD 617
Cdd:COG0507 208 ----FRHNRDNPLTPADLLVVDEASMVDTRLMAALLEALPRAGARLILVGDPDQLPSVGAGAVLRDLIESGTVPVVE-LT 282
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 618 TVHRFSDP-EYAALSLLMRTGQDPGTVFDALHRRGQIAVHRSE--VERLAAVAETAQDGG---RIIADTREQVTALNAAI 691
Cdd:COG0507 283 EVYRQADDsRIIELAHAIREGDAPEALNARYADVVFVEAEDAEeaAEAIVELYADRPAGGediQVLAPTNAGVDALNQAI 362
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 692 RDQRVATGQTvsTRALITAAGEPLGLGDHITTRRNDRNLGVANRDQWTVTGMHNDGG-LRVHGRGVERILPAPYVRHHVE 770
Cdd:COG0507 363 REALNPAGEL--ERELAEDGELELYVGDRVMFTRNDYDLGVFNGDIGTVLSIDEDEGrLTVRFDGREIVTYDPSELDQLE 440
|
410 420 430 440
....*....|....*....|....*....|....*....|....*..
gi 2045874931 771 LAYATTVHGAQGETVDHAHLLIGEATGAA----GAYVGMTRGRRTNT 813
Cdd:COG0507 441 LAYAITVHKSQGSTFDRVILVLPSEHSPLlsreLLYTALTRARELLT 487
|
|
| TrwC |
pfam08751 |
TrwC relaxase; Relaxases are DNA strand transferases which function during the conjugative ... |
12-312 |
2.29e-48 |
|
TrwC relaxase; Relaxases are DNA strand transferases which function during the conjugative cell to cell DNA transfer. TrwC binds to the origin of transfer (oriT) and melts the double helix.
Pssm-ID: 430190 [Multi-domain] Cd Length: 279 Bit Score: 173.18 E-value: 2.29e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 12 PSAARSYVEADrsrvDDYYLAEGTgvatryvatAPPAVGGRSIAAVQDGGTLDGDAYERWVAGYDIATGAAKGRLRTDER 91
Cdd:pfam08751 1 AGDAYAYYTRQ----DDYYTEGGE---------PPGRWLGKGAAALGLSGEVTEEQFEALLEGRHPDTGERLGRRRPRGR 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 92 -GLRFVEVVVNGPKTWSLAATLHPE--IAAAydasQDRAATEIIAWLAEHAT-TRVGPRGRQVQVPVEQLEAAVVRHYTS 167
Cdd:pfam08751 68 kHRAGFDLTFSAPKSVSLLAAVGGDerIEAA----HRAAVAEALAWLEKHAAqTRVGKDGGVEQVDTGGLVAAAFRHDTS 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 168 RAGDPHRHLHLQINARVF-AAGRWRGLHSvgvvdsieaiNGIGHAAVACDPQFR----ETLTAHGYTLDPK----SGEIT 238
Cdd:pfam08751 144 RAGDPQLHTHVVVANVTQrEDGKWRALDS----------RGLYKAQVAAGAVYRaelaDELRRLGYEIEERgkrgVFEIA 213
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2045874931 239 QL-KPYAGAFSARAAQIGRNIDRHEAawrteHPGEEPGPQLrrawdRRAWATARPDKVIPTDGAQLAERWRDELR 312
Cdd:pfam08751 214 GVpEELIEAFSKRRAQIEAELAELGA-----THGRAPPAAR-----QIAALETRPAKHEPRSLAELRARWREEAA 278
|
|
| AAA_30 |
pfam13604 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
449-653 |
8.11e-40 |
|
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: 145.78 E-value: 8.11e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 449 ELDPAQRRVVAALTGTGPLL-VIEGAAGAGKTSTLDVARRLVEIRSHRLVVATPTLKAARAAEAQLGTDAFSAAWLVHQH 527
Cdd:pfam13604 1 TLNAEQAAAVRALLTSGDRVaVLVGPAGTGKTTALKALREAWEAAGYRVIGLAPTGRAAKVLGEELGIPADTIAKLLHRL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 528 gyrwdtdgrwtrtnaqpDTRARLRPGDVLLVDEAGMLDQDTARALLTIADQADARVAFVGDRHQLPAVGRGGVLDHAARw 607
Cdd:pfam13604 81 -----------------GGRAGLDPGTLLIVDEAGMVGTRQMARLLKLAEDAGARVILVGDPRQLPSVEAGGAFRDLLA- 142
|
170 180 190 200
....*....|....*....|....*....|....*....|....*.
gi 2045874931 608 ARPEAcLALDTVHRFSDPEYAALSLLMRTGqDPGTVFDALHRRGQI 653
Cdd:pfam13604 143 AGIGT-AELTEIVRQRDPWQRAASLALRDG-DPAEALDALADRGRI 186
|
|
| TraA_Ti |
TIGR02768 |
Ti-type conjugative transfer relaxase TraA; This protein contains domains distinctive of a ... |
343-825 |
4.07e-36 |
|
Ti-type conjugative transfer relaxase TraA; This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Pssm-ID: 274289 [Multi-domain] Cd Length: 744 Bit Score: 146.49 E-value: 4.07e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 343 DLVLTRLGARRSAWNAADIRGEVERIIAVAGIVTPAPVRRELVEDLtsrtvdrceLLLTREDVPEHIRALTSHDVLDVET 422
Cdd:TIGR02768 251 ELVLDLLTTEQSVFTRRDIARLLHRYIDDPQQFQQLMARVLASPQL---------VALGDPGTGKEPARFSTREMIRLEA 321
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 423 ELV--TRLAARAEQPATPSWIGLLAFGRE--LDPAQRRVVAALTGTGPLLVIEGAAGAGKTSTLDVARRLVEIRSHRLVV 498
Cdd:TIGR02768 322 QMArsAEALSQSQGHGVSPPIVDAAIDQHyrLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIG 401
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 499 ATPTLKAARAAEAQLGTDAFSAAWLvhqhGYRWDTDgrwtrtnaqpdtRARLRPGDVLLVDEAGMLDQDTARALLTIADQ 578
Cdd:TIGR02768 402 AALSGKAAEGLQAESGIESRTLASL----EYAWANG------------RDLLSDKDVLVIDEAGMVGSRQMARVLKEAEE 465
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 579 ADARVAFVGDRHQLPAVGRGGVLDH-AARWARPEaclaLDTVHRFSDPEYAALSLLMRTGqDPGTVFDALHRRGQIAVHR 657
Cdd:TIGR02768 466 AGAKVVLVGDPEQLQPIEAGAAFRAiAERIGYAE----LETIRRQREAWARQASLELARG-DVEKALAAYRDHGHITIHD 540
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 658 SEVERLAAVA--------ETAQDGGRII-ADTREQVTALNAAIRDQRVATGQTVSTRALITAAGE-PLGLGDHITTRRND 727
Cdd:TIGR02768 541 TREEAIEQVVadwkqdlrEANPAGSQIMlAHTRKDVRALNEAAREALIERGELGESILFQTARGErKFAAGDRIVFLENN 620
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 728 RNLGVANRDQWTVTGMhNDGGLRVH-GRGVERILPAPYVRhHVELAYATTVHGAQGETVDHAHLLIGEATGAAGAYVGMT 806
Cdd:TIGR02768 621 RDLGVKNGMLGTVEEI-EDGRLVVQlDSGELVIIPQAEYD-ALDHGYATTIHKSQGVTVDRAFVLASKSMDRHLAYVAMT 698
|
490
....*....|....*....
gi 2045874931 807 RGRRTNTAHLVAENSDDAR 825
Cdd:TIGR02768 699 RHRESVQLYAGKEDFTDRG 717
|
|
| MobF |
NF041492 |
MobF family relaxase; |
14-311 |
7.45e-34 |
|
MobF family relaxase;
Pssm-ID: 469380 [Multi-domain] Cd Length: 288 Bit Score: 131.66 E-value: 7.45e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 14 AARSYVEADRsrvDDYYLAEGTGVATRYVatappavGGRSIAAVQDGGTLDGDAYERWVAGyDIATGAAKGRLRTDERGL 93
Cdd:NF041492 13 AARYYTEKDL---DNYYSEDGGTPAGRWF-------GKGAEALGLSGGAVDGERFKALLDG-RLPDGERLRRRRKGAGRH 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 94 RF-VEVVVNGPKTWSLAATLH--PEIAAAydasQDRAATEIIAWLAEHAT-TRVG--PRGRQVQVPVEQLEAAVVRHYTS 167
Cdd:NF041492 82 RPgYDLTFSAPKSVSLLALVGgdKRLIEA----HDEAVKEALEYLEERLAqTRVTvdGKGRTSLEKTGNLVAALFRHDTS 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 168 RAGDPHRHLHLQINARVFAA-GRWRGLHSVGVVDSIEAINGIGHAAvacdpqFRETLTAHGYTLDPKSGEITQLKPYA-- 244
Cdd:NF041492 158 RAGDPQLHTHAVVMNMTQRPdGKWRSLDNEELYKNQKALGAIYQAE------LAEELQALGYEIRETKNGQFEIAGVPre 231
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2045874931 245 --GAFSARAAQIGrnidrheaAWRTEHPGEEPGPQLRRAwdrrAWATARPDKVIPTDGAQLAERWRDEL 311
Cdd:NF041492 232 qiEAFSKRSQQIE--------EWLGENPATLASAALRQI----AALDTRKAKEADVDPEELEAEWREEA 288
|
|
| DEXSc_RecD-like |
cd17933 |
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ... |
453-620 |
1.41e-27 |
|
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: 109.18 E-value: 1.41e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 453 AQRRVVAALTGtGPLLVIEGAAGAGKTSTLDVARRLVEIRSHRLVVATPTLKAARAAEAQLGTDAFS-AAWLvhqhgyrw 531
Cdd:cd17933 1 EQKAAVRLVLR-NRVSVLTGGAGTGKTTTLKALLAALEAEGKRVVLAAPTGKAAKRLSESTGIEASTiHRLL-------- 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 532 dtdGRWTRTNAQPDTRARLRPGDVLLVDEAGMLDQDTARALLTIADqADARVAFVGDRHQLPAVGRGGVLdhAARWARPE 611
Cdd:cd17933 72 ---GINPGGGGFYYNEENPLDADLLIVDEASMVDTRLMAALLSAIP-AGARLILVGDPDQLPSVGAGNVL--RDLIASKG 145
|
170
....*....|
gi 2045874931 612 ACLA-LDTVH 620
Cdd:cd17933 146 VPTVeLTEVF 155
|
|
| PRK13889 |
PRK13889 |
conjugal transfer relaxase TraA; Provisional |
413-837 |
1.59e-19 |
|
conjugal transfer relaxase TraA; Provisional
Pssm-ID: 237546 [Multi-domain] Cd Length: 988 Bit Score: 94.37 E-value: 1.59e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 413 TSHDVLDVETELV--TRLAARAEQPATPSWIGLLAFGRE------LDPAQRRVVAALTGTGPLLVIEGAAGAGKTSTLDV 484
Cdd:PRK13889 302 TTRAMIETEQRLHraAELMAERERHAVSDADREAALARAearglvLSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLGV 381
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 485 ARRLVEIRSHRLVVATPTLKAARAAEAQLGTDAFSAAWLVHQhgyrwdtdgrWTRTnaqpdtRARLRPGDVLLVDEAGML 564
Cdd:PRK13889 382 AREAWEAAGYEVRGAALSGIAAENLEGGSGIASRTIASLEHG----------WGQG------RDLLTSRDVLVIDEAGMV 445
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 565 DQDTARALLTIADQADARVAFVGDRHQLPAVGRGG----------------VLDHAARWARpEACLALDTvhrfsdpeya 628
Cdd:PRK13889 446 GTRQLERVLSHAADAGAKVVLVGDPQQLQAIEAGAafrsiherhggaeigeVRRQREDWQR-DATRDLAT---------- 514
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 629 alsllMRTGqdpgtvfDALHR-RGQIAVHRSE---------VERLAAVAETAQDGGRII-ADTREQVTALNAAIRDQRVA 697
Cdd:PRK13889 515 -----GRTG-------EALDAyEAHGMVHAAAtreqaradlIDRWDRDRQAAPDRSRIIlTHTNDEVRALNEAARERMRA 582
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 698 TGQTVSTRALITAAGE-PLGLGDHITTRRNDRNLGVANRDQWTVTGMhNDGGLRVH---GRGVERILpAPYvrHHVELAY 773
Cdd:PRK13889 583 AGDLGDDVRVTVERGErSFASGDRVMFLQNERGLGVKNGTLGTIEQV-SAQSMSVRlddGRSVAFDL-KDY--DRIDHGY 658
|
410 420 430 440 450 460
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2045874931 774 ATTVHGAQGETVDHAHLLIGEATGAAGAYVGMTRGRRTNTAHLVAENSDDaRDQWTAVFARDRA 837
Cdd:PRK13889 659 AATIHKAQGMTVDRTHVLATPGMDAHSSYVALSRHRDGVDLHYGRDDFAD-RDRLVRTLSRDRA 721
|
|
| relax_trwC |
TIGR02686 |
conjugative relaxase domain, TrwC/TraI family; This domain is in the N-terminal (relaxase) ... |
26-318 |
4.70e-10 |
|
conjugative relaxase domain, TrwC/TraI family; This domain is in the N-terminal (relaxase) region of TrwC, a relaxase-helicase that acts in plasmid R388 conjugation. The relaxase domain has DNA cleavage and strand transfer activities. Plasmid transfer protein TraI is also a member of this domain family. Members of this family on bacterial chromosomes typically are found near other genes typical of conjugative plasmids and appear to mark integrated plasmids. [Mobile and extrachromosomal element functions, Plasmid functions]
Pssm-ID: 274258 [Multi-domain] Cd Length: 283 Bit Score: 61.70 E-value: 4.70e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 26 VDDYYLAEGTGVatRYvatappavGGRSIAAVQDGGTLDGDAYERWVAGyDIATGAAKGRLRTDERGLRF-VEVVVNGPK 104
Cdd:TIGR02686 8 GDNYYLKDSDAG--RW--------LGKGAQELGLSGEVEKKQFEALLEG-RLPDGTRLGRIEDRQSKHRPgFDLTFSAPK 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 105 TWSLAATL--HPEIAAAYDASQDRAATEIIAWLAEhatTRVGPRGRQVQVPVEQLEAAVVRHYTSRAGDPHRHLHLQI-N 181
Cdd:TIGR02686 77 SVSILALVggDPRLIDAHDEAVKFTLEQLEKEAAA---ARVTQDGEIEFEKTGNLVIALFRHDTSRANDPQLHTHAVVaN 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 182 ARVFAAGRWRGLHS--VGVVDSIEAINGIGHAAVAC-DPQFRETLTAHGYTL--DPKSG--EI-----TQLKpyagAFSA 249
Cdd:TIGR02686 154 MTRRSDGKWRSLSSdkKGKHGFIEEIYKNQIYLGLLyRAKLANELKELGYQTrvYGKHGnfEIdgvpeEVIE----AFSK 229
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2045874931 250 RAAQIGRNIDrhEAAWRTEhpgeepgpqlrRAWDRRAWATaRPDKVIPTDGAqLAERWRDELRGLGFTP 318
Cdd:TIGR02686 230 RRQQIEEWVA--ERGWSLA-----------KSRDTAALDT-RKKKTVHDREA-LREEWQQTAKELGFDP 283
|
|
| DNA2 |
COG1112 |
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]; |
20-595 |
1.61e-03 |
|
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];
Pssm-ID: 440729 [Multi-domain] Cd Length: 819 Bit Score: 42.42 E-value: 1.61e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 20 EADRSRVDDYYLAEGTGVATRYVATAPPAVGGRSIAAVQDGGTLDGDAYERWVAGYDIATGAAKGRLRTDERGLRFVEVV 99
Cdd:COG1112 19 ALLALLLALALLLDLLLLLLLAAALLLLALALALLLLALRALELLDLLAALALLLLLLLLDAELLLLALRALLLLLAAEL 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 100 VNGPKTWSLAATLHPEIAAAYDASQDRAATEIIAWLAEHATTRVGPRGRQVQVPVEQLEAAVVRHYTSRAGDPHR-HLHL 178
Cdd:COG1112 99 LLLLLLLLLLAALLLALAALLLALALLLLALALLALLALLLAELLDLLAALAALAALLAALLLLLLLLAALLLLDlRLLA 178
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 179 QINARVFAAGRWRGLHSVGVVDSIEAINGIGHAAVACDPQFRETLTAHGYTLDPKSGEITQLKPYAGAFSARAAQIGRNI 258
Cdd:COG1112 179 LLELLLAAALALALLALLALALEDELALLLLLLLLALLLLLALLLLLDALLLLLAALALLALALLLALLLLLLALLLLAA 258
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 259 DRHEAAWRTEHPGEEPGPQLRRAWDRRAWATARPDKVIPTDGAQLAERWRDELRGLGFTPPHSPTQDGHRPWAAIGRVNR 338
Cdd:COG1112 259 LALLRAALRLDLLAALELLAALSLALLALLAALALALLLLAALALLLALALAALLALLALLALLAARLAAALAALLLLLL 338
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 339 TAVADLVLTRLGARRSAWNAADIRGEVERIIAVAGIVTPAPVRRELVEDLTSRTVDRCELLLTREDVPEHIRALTSHDVL 418
Cdd:COG1112 339 LEELALLAALLLLLELALLRLLAALLLALALLLLLALEELLLLALLRLLAEGLALLLLLLLAALLRLARALLLLALLLAA 418
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 419 DVETELVTRLAARAEQPATPSWIGLLAFGRELDPAQRRVVAALTGTGPLLVIEGAAGAGKTSTLDVARRLVEIRSHRLVV 498
Cdd:COG1112 419 AAAALAALLLLALALLAALLALLLLLAAALAALLALLLLLLLALAALLLLLAAAAALLALALLESLLEELIEEHPEELEK 498
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 499 ATPTLKAARAAEAQLGTDAFSAAWLVHQHGYRWDTDGR-WTRTNAQPDTRARLRPG--DVLLVDEAGMLDQDTARALLTI 575
Cdd:COG1112 499 LIAELREAARLRRALRRELKKRRELRKLLWDALLELAPvVGMTPASVARLLPLGEGsfDLVIIDEASQATLAEALGALAR 578
|
570 580
....*....|....*....|
gi 2045874931 576 ADqadaRVAFVGDRHQLPAV 595
Cdd:COG1112 579 AK----RVVLVGDPKQLPPV 594
|
|
| PRK13709 |
PRK13709 |
conjugal transfer nickase/helicase TraI; Provisional |
122-316 |
1.69e-03 |
|
conjugal transfer nickase/helicase TraI; Provisional
Pssm-ID: 237478 [Multi-domain] Cd Length: 1747 Bit Score: 42.47 E-value: 1.69e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 122 ASQDRAATEIIAWLAEHATTRVGPRGRQVQVPVEQLEAAVVRHYTSRAGDPHRHLHLQINARVFAAGRWRGLHS--VGVV 199
Cdd:PRK13709 103 EAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLVMALFNHDTSRDQDPQLHTHAVVANVTQHNGKWKTLSSdkVGKT 182
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 200 DSIEAI--NGIGHAAVAcDPQFRETLTAHGYTLDP--KSGeITQLK--PYAgAFSARAAQIgrnidrHEAAwrtehpGEE 273
Cdd:PRK13709 183 GFIENVyaNQIAFGKIY-REALKEDVEALGYETEVvgKHG-MWEMKgvPVE-AFSSRSQEI------REAV------GED 247
|
170 180 190 200
....*....|....*....|....*....|....*....|...
gi 2045874931 274 PGPQLRrawDRRAWATaRPDKVIPtDGAQLAERWRDELRGLGF 316
Cdd:PRK13709 248 ASLKSR---DVAALDT-RKSKQHV-DPEVRMAEWMQTLKETGF 285
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
397-813 |
2.02e-67 |
|
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: 233.72 E-value: 2.02e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 397 ELLLTREDVPEHIRALTSHDVLDVETELVT--------RLAARAEQPATPSWIGLLA----------FGRELDPAQRRVV 458
Cdd:COG0507 54 RLLGVAEDIEAALAALVESGPLVLDGRRYLtrlleaeqRLARRLRRLARPALDEADVeaalaaleprAGITLSDEQREAV 133
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 459 AALTGTGPLLVIEGAAGAGKTSTLDVARRLVEIRSHRLVVATPTLKAARAAEAQLGTDAFSaawlVHQH-GYRWDTDGrw 537
Cdd:COG0507 134 ALALTTRRVSVLTGGAGTGKTTTLRALLAALEALGLRVALAAPTGKAAKRLSESTGIEART----IHRLlGLRPDSGR-- 207
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 538 trtnAQPDTRARLRPGDVLLVDEAGMLDQDTARALLTIADQADARVAFVGDRHQLPAVGRGGVLDHAARWARPEACLaLD 617
Cdd:COG0507 208 ----FRHNRDNPLTPADLLVVDEASMVDTRLMAALLEALPRAGARLILVGDPDQLPSVGAGAVLRDLIESGTVPVVE-LT 282
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 618 TVHRFSDP-EYAALSLLMRTGQDPGTVFDALHRRGQIAVHRSE--VERLAAVAETAQDGG---RIIADTREQVTALNAAI 691
Cdd:COG0507 283 EVYRQADDsRIIELAHAIREGDAPEALNARYADVVFVEAEDAEeaAEAIVELYADRPAGGediQVLAPTNAGVDALNQAI 362
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 692 RDQRVATGQTvsTRALITAAGEPLGLGDHITTRRNDRNLGVANRDQWTVTGMHNDGG-LRVHGRGVERILPAPYVRHHVE 770
Cdd:COG0507 363 REALNPAGEL--ERELAEDGELELYVGDRVMFTRNDYDLGVFNGDIGTVLSIDEDEGrLTVRFDGREIVTYDPSELDQLE 440
|
410 420 430 440
....*....|....*....|....*....|....*....|....*..
gi 2045874931 771 LAYATTVHGAQGETVDHAHLLIGEATGAA----GAYVGMTRGRRTNT 813
Cdd:COG0507 441 LAYAITVHKSQGSTFDRVILVLPSEHSPLlsreLLYTALTRARELLT 487
|
|
| TrwC |
pfam08751 |
TrwC relaxase; Relaxases are DNA strand transferases which function during the conjugative ... |
12-312 |
2.29e-48 |
|
TrwC relaxase; Relaxases are DNA strand transferases which function during the conjugative cell to cell DNA transfer. TrwC binds to the origin of transfer (oriT) and melts the double helix.
Pssm-ID: 430190 [Multi-domain] Cd Length: 279 Bit Score: 173.18 E-value: 2.29e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 12 PSAARSYVEADrsrvDDYYLAEGTgvatryvatAPPAVGGRSIAAVQDGGTLDGDAYERWVAGYDIATGAAKGRLRTDER 91
Cdd:pfam08751 1 AGDAYAYYTRQ----DDYYTEGGE---------PPGRWLGKGAAALGLSGEVTEEQFEALLEGRHPDTGERLGRRRPRGR 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 92 -GLRFVEVVVNGPKTWSLAATLHPE--IAAAydasQDRAATEIIAWLAEHAT-TRVGPRGRQVQVPVEQLEAAVVRHYTS 167
Cdd:pfam08751 68 kHRAGFDLTFSAPKSVSLLAAVGGDerIEAA----HRAAVAEALAWLEKHAAqTRVGKDGGVEQVDTGGLVAAAFRHDTS 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 168 RAGDPHRHLHLQINARVF-AAGRWRGLHSvgvvdsieaiNGIGHAAVACDPQFR----ETLTAHGYTLDPK----SGEIT 238
Cdd:pfam08751 144 RAGDPQLHTHVVVANVTQrEDGKWRALDS----------RGLYKAQVAAGAVYRaelaDELRRLGYEIEERgkrgVFEIA 213
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2045874931 239 QL-KPYAGAFSARAAQIGRNIDRHEAawrteHPGEEPGPQLrrawdRRAWATARPDKVIPTDGAQLAERWRDELR 312
Cdd:pfam08751 214 GVpEELIEAFSKRRAQIEAELAELGA-----THGRAPPAAR-----QIAALETRPAKHEPRSLAELRARWREEAA 278
|
|
| AAA_30 |
pfam13604 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
449-653 |
8.11e-40 |
|
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: 145.78 E-value: 8.11e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 449 ELDPAQRRVVAALTGTGPLL-VIEGAAGAGKTSTLDVARRLVEIRSHRLVVATPTLKAARAAEAQLGTDAFSAAWLVHQH 527
Cdd:pfam13604 1 TLNAEQAAAVRALLTSGDRVaVLVGPAGTGKTTALKALREAWEAAGYRVIGLAPTGRAAKVLGEELGIPADTIAKLLHRL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 528 gyrwdtdgrwtrtnaqpDTRARLRPGDVLLVDEAGMLDQDTARALLTIADQADARVAFVGDRHQLPAVGRGGVLDHAARw 607
Cdd:pfam13604 81 -----------------GGRAGLDPGTLLIVDEAGMVGTRQMARLLKLAEDAGARVILVGDPRQLPSVEAGGAFRDLLA- 142
|
170 180 190 200
....*....|....*....|....*....|....*....|....*.
gi 2045874931 608 ARPEAcLALDTVHRFSDPEYAALSLLMRTGqDPGTVFDALHRRGQI 653
Cdd:pfam13604 143 AGIGT-AELTEIVRQRDPWQRAASLALRDG-DPAEALDALADRGRI 186
|
|
| TraA_Ti |
TIGR02768 |
Ti-type conjugative transfer relaxase TraA; This protein contains domains distinctive of a ... |
343-825 |
4.07e-36 |
|
Ti-type conjugative transfer relaxase TraA; This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Pssm-ID: 274289 [Multi-domain] Cd Length: 744 Bit Score: 146.49 E-value: 4.07e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 343 DLVLTRLGARRSAWNAADIRGEVERIIAVAGIVTPAPVRRELVEDLtsrtvdrceLLLTREDVPEHIRALTSHDVLDVET 422
Cdd:TIGR02768 251 ELVLDLLTTEQSVFTRRDIARLLHRYIDDPQQFQQLMARVLASPQL---------VALGDPGTGKEPARFSTREMIRLEA 321
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 423 ELV--TRLAARAEQPATPSWIGLLAFGRE--LDPAQRRVVAALTGTGPLLVIEGAAGAGKTSTLDVARRLVEIRSHRLVV 498
Cdd:TIGR02768 322 QMArsAEALSQSQGHGVSPPIVDAAIDQHyrLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIG 401
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 499 ATPTLKAARAAEAQLGTDAFSAAWLvhqhGYRWDTDgrwtrtnaqpdtRARLRPGDVLLVDEAGMLDQDTARALLTIADQ 578
Cdd:TIGR02768 402 AALSGKAAEGLQAESGIESRTLASL----EYAWANG------------RDLLSDKDVLVIDEAGMVGSRQMARVLKEAEE 465
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 579 ADARVAFVGDRHQLPAVGRGGVLDH-AARWARPEaclaLDTVHRFSDPEYAALSLLMRTGqDPGTVFDALHRRGQIAVHR 657
Cdd:TIGR02768 466 AGAKVVLVGDPEQLQPIEAGAAFRAiAERIGYAE----LETIRRQREAWARQASLELARG-DVEKALAAYRDHGHITIHD 540
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 658 SEVERLAAVA--------ETAQDGGRII-ADTREQVTALNAAIRDQRVATGQTVSTRALITAAGE-PLGLGDHITTRRND 727
Cdd:TIGR02768 541 TREEAIEQVVadwkqdlrEANPAGSQIMlAHTRKDVRALNEAAREALIERGELGESILFQTARGErKFAAGDRIVFLENN 620
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 728 RNLGVANRDQWTVTGMhNDGGLRVH-GRGVERILPAPYVRhHVELAYATTVHGAQGETVDHAHLLIGEATGAAGAYVGMT 806
Cdd:TIGR02768 621 RDLGVKNGMLGTVEEI-EDGRLVVQlDSGELVIIPQAEYD-ALDHGYATTIHKSQGVTVDRAFVLASKSMDRHLAYVAMT 698
|
490
....*....|....*....
gi 2045874931 807 RGRRTNTAHLVAENSDDAR 825
Cdd:TIGR02768 699 RHRESVQLYAGKEDFTDRG 717
|
|
| MobF |
NF041492 |
MobF family relaxase; |
14-311 |
7.45e-34 |
|
MobF family relaxase;
Pssm-ID: 469380 [Multi-domain] Cd Length: 288 Bit Score: 131.66 E-value: 7.45e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 14 AARSYVEADRsrvDDYYLAEGTGVATRYVatappavGGRSIAAVQDGGTLDGDAYERWVAGyDIATGAAKGRLRTDERGL 93
Cdd:NF041492 13 AARYYTEKDL---DNYYSEDGGTPAGRWF-------GKGAEALGLSGGAVDGERFKALLDG-RLPDGERLRRRRKGAGRH 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 94 RF-VEVVVNGPKTWSLAATLH--PEIAAAydasQDRAATEIIAWLAEHAT-TRVG--PRGRQVQVPVEQLEAAVVRHYTS 167
Cdd:NF041492 82 RPgYDLTFSAPKSVSLLALVGgdKRLIEA----HDEAVKEALEYLEERLAqTRVTvdGKGRTSLEKTGNLVAALFRHDTS 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 168 RAGDPHRHLHLQINARVFAA-GRWRGLHSVGVVDSIEAINGIGHAAvacdpqFRETLTAHGYTLDPKSGEITQLKPYA-- 244
Cdd:NF041492 158 RAGDPQLHTHAVVMNMTQRPdGKWRSLDNEELYKNQKALGAIYQAE------LAEELQALGYEIRETKNGQFEIAGVPre 231
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2045874931 245 --GAFSARAAQIGrnidrheaAWRTEHPGEEPGPQLRRAwdrrAWATARPDKVIPTDGAQLAERWRDEL 311
Cdd:NF041492 232 qiEAFSKRSQQIE--------EWLGENPATLASAALRQI----AALDTRKAKEADVDPEELEAEWREEA 288
|
|
| DEXSc_RecD-like |
cd17933 |
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ... |
453-620 |
1.41e-27 |
|
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: 109.18 E-value: 1.41e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 453 AQRRVVAALTGtGPLLVIEGAAGAGKTSTLDVARRLVEIRSHRLVVATPTLKAARAAEAQLGTDAFS-AAWLvhqhgyrw 531
Cdd:cd17933 1 EQKAAVRLVLR-NRVSVLTGGAGTGKTTTLKALLAALEAEGKRVVLAAPTGKAAKRLSESTGIEASTiHRLL-------- 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 532 dtdGRWTRTNAQPDTRARLRPGDVLLVDEAGMLDQDTARALLTIADqADARVAFVGDRHQLPAVGRGGVLdhAARWARPE 611
Cdd:cd17933 72 ---GINPGGGGFYYNEENPLDADLLIVDEASMVDTRLMAALLSAIP-AGARLILVGDPDQLPSVGAGNVL--RDLIASKG 145
|
170
....*....|
gi 2045874931 612 ACLA-LDTVH 620
Cdd:cd17933 146 VPTVeLTEVF 155
|
|
| PRK13889 |
PRK13889 |
conjugal transfer relaxase TraA; Provisional |
413-837 |
1.59e-19 |
|
conjugal transfer relaxase TraA; Provisional
Pssm-ID: 237546 [Multi-domain] Cd Length: 988 Bit Score: 94.37 E-value: 1.59e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 413 TSHDVLDVETELV--TRLAARAEQPATPSWIGLLAFGRE------LDPAQRRVVAALTGTGPLLVIEGAAGAGKTSTLDV 484
Cdd:PRK13889 302 TTRAMIETEQRLHraAELMAERERHAVSDADREAALARAearglvLSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLGV 381
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 485 ARRLVEIRSHRLVVATPTLKAARAAEAQLGTDAFSAAWLVHQhgyrwdtdgrWTRTnaqpdtRARLRPGDVLLVDEAGML 564
Cdd:PRK13889 382 AREAWEAAGYEVRGAALSGIAAENLEGGSGIASRTIASLEHG----------WGQG------RDLLTSRDVLVIDEAGMV 445
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 565 DQDTARALLTIADQADARVAFVGDRHQLPAVGRGG----------------VLDHAARWARpEACLALDTvhrfsdpeya 628
Cdd:PRK13889 446 GTRQLERVLSHAADAGAKVVLVGDPQQLQAIEAGAafrsiherhggaeigeVRRQREDWQR-DATRDLAT---------- 514
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 629 alsllMRTGqdpgtvfDALHR-RGQIAVHRSE---------VERLAAVAETAQDGGRII-ADTREQVTALNAAIRDQRVA 697
Cdd:PRK13889 515 -----GRTG-------EALDAyEAHGMVHAAAtreqaradlIDRWDRDRQAAPDRSRIIlTHTNDEVRALNEAARERMRA 582
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 698 TGQTVSTRALITAAGE-PLGLGDHITTRRNDRNLGVANRDQWTVTGMhNDGGLRVH---GRGVERILpAPYvrHHVELAY 773
Cdd:PRK13889 583 AGDLGDDVRVTVERGErSFASGDRVMFLQNERGLGVKNGTLGTIEQV-SAQSMSVRlddGRSVAFDL-KDY--DRIDHGY 658
|
410 420 430 440 450 460
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2045874931 774 ATTVHGAQGETVDHAHLLIGEATGAAGAYVGMTRGRRTNTAHLVAENSDDaRDQWTAVFARDRA 837
Cdd:PRK13889 659 AATIHKAQGMTVDRTHVLATPGMDAHSSYVALSRHRDGVDLHYGRDDFAD-RDRLVRTLSRDRA 721
|
|
| TraI_TIGR |
TIGR02760 |
conjugative transfer relaxase protein TraI; This protein is a component of the relaxosome ... |
11-793 |
1.96e-18 |
|
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: 91.12 E-value: 1.96e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 11 SPSAARSYVeadrSRVDDYYLAEG-TGVATRYVATappavgGRSIAAVQdGGTLDGDAYERWVAGyDIATGAAKGRLRTD 89
Cdd:TIGR02760 9 SAGDAAAYY----LDEDNYYLKDSkSLNNTRWLGK------GAEQLGLL-GKPVEKEQFEALLSG-TLPDGTQLGRIDKG 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 90 ERGLR-FVEVVVNGPKTWSLAATL--HPEIAAAYDASQDRAATEIIAWLAEhatTRVGPRGRQVQVPVEQLEAAVVRHYT 166
Cdd:TIGR02760 77 GIHHRpGFDLTFSAPKSVSILALVggDKRLIEAHDKAVKIAVSEMEKDAAQ---ARQTVDGKTEFINTRNLVFAMFRHKT 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 167 SRAGDPHRHLHLQI-NARVFAAGRWRGLHS-----VGVVD-SIEAI--NGIGHAAVAcDPQFRETLTAHGYTLDPKSG-- 235
Cdd:TIGR02760 154 SRENDPQLHTHAVVqNMTHDSDGKWRSLASdmkgqKGVIEgFRERIynHQIYYGLLY-RSKLAKKVEELGYQTASVGKgq 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 236 -EITQL-KPYAGAFSARAAQIGRNIDrhEAAWRTEhpgeepgpqlrRAWDRRAWATARPDKVIptDGAQLAERWRDELRG 313
Cdd:TIGR02760 233 fEIQGVpEQVLTAFSKRRQQIDELVD--EKGWSSA-----------KARDIAALDTRKDKTYI--DDETLMEKWQQECKD 297
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 314 LGFTPpHSPTQDGHRPWAAIGR------VNRTAVADLVLTRLGARRSAWNAAD-IRGEVERIIAVAGIVTPAPVRRELVE 386
Cdd:TIGR02760 298 MGFDP-HALVASSYKPENIVARfygpsqIDAQHAVEVAIAHLSQYSTQFEYEKlIEEAAKYFTAGNKIIDEIDIKKAIDE 376
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 387 DLTSRTvdrcelLLTREDVPEHiraLTSHDVLDVETELVTRLAARAEQ-PATPSWIGLLAFGreLDPAQRRVVAALTGTG 465
Cdd:TIGR02760 377 LIANGQ------LIPLFTQKGL---FTTQTMLTNEKELIARTEGGKGAlRVIVSKQKLSEFA--LSPSNKDAVSTLFTST 445
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 466 P-LLVIEGAAGAGKTSTLDVARRLVEIRSHRLVVATPTLKAARAAEAQLGTDAFSAA-WLvhQHGYRWDTDGRWTRTnaq 543
Cdd:TIGR02760 446 KrFIIINGFGGTGSTEIAQLLLHLASEQGYEIQIITAGSLSAQELRQKIPRLASTFItWV--KNLFNDDQDHTVQGL--- 520
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 544 PDTRARLRPGDVLLVDEAGMLDQDTARALLTIADQADARVAFVGDRHQLPAVGRGGVLD-------HAARW---ARPEAC 613
Cdd:TIGR02760 521 LDKSSPFSNKDIFVVDEANKLSNNELLKLIDKAEQHNSKLILLNDSAQRQGMSAGSAIDllkeggvTTYAWvdtKQQKAS 600
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 614 LAL------DTVHRFS---------DPEYAALSLLMRTGQD-PGTVFDALHRRGQIAVHRSEVERLAAV---------AE 668
Cdd:TIGR02760 601 VEIseavdkLRVDYIAsawldltpdRQNSQVLATTHREQQDlTQIIRNALKQEGQLSRQEVTVPTLKPVnltgiqrrnAA 680
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 669 TAQDG--------GRIIADtREQVTALNAA-----IRDqrvATGQT----VSTRALITAAGE-------PLGLGDHITTR 724
Cdd:TIGR02760 681 HYKQGmvirfwqkGKIPHD-DYVVTNVNKHnntltLKD---AQGKTqkfkPSSLKDLERPFSvyrpeqlEVAAGERLQVT 756
|
810 820 830 840 850 860 870
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 725 RNDRNLGVANRDQWTVTGMHNDGGLRVHGRGVERILP-APYVRHHVELAYATTVHGAQGetvDHAHLLIG 793
Cdd:TIGR02760 757 GNHFHSRVRNGELLTVSSINNEGITLITEDGQTLHLPhGALEDAHLDYGYVLTPYHTQP---DDAKVFLG 823
|
|
| recD_rel |
TIGR01448 |
helicase, putative, RecD/TraA family; This model describes a family similar to RecD, the ... |
447-809 |
6.65e-15 |
|
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: 79.06 E-value: 6.65e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 447 GRELDPAQRRVVAALTGTgPLLVIEGAAGAGKTSTLD-VARRLVEIRSHRLVV-ATPTLKAARaaeaQLGTDAFSAAWLV 524
Cdd:TIGR01448 321 RKGLSEEQKQALDTAIQH-KVVILTGGPGTGKTTITRaIIELAEELGGLLPVGlAAPTGRAAK----RLGEVTGLTASTI 395
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 525 HQHgYRWDTDGRWTRTNAQPdtrarlRPGDVLLVDEAGMLDQDTARALLTiADQADARVAFVGDRHQLPAVGRGGVL-DH 603
Cdd:TIGR01448 396 HRL-LGYGPDTFRHNHLEDP------IDCDLLIVDESSMMDTWLALSLLA-ALPDHARLLLVGDTDQLPSVGPGQVLkDL 467
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 604 AARWARPEAclALDTVHRFSDPE-YAALSLLMRTGQDPGTVfDALhrrgQIAVHRSEVE----RLAAVAE----TAQDGG 674
Cdd:TIGR01448 468 ILSQAIPVT--RLTKVYRQAAGSpIITLAHGILHGEAPAWG-DFK----FLNLTRSEPEgaarHIPLMVEkivgMARVGG 540
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 675 RIIADTreQVTA-------------------LNAAIRDQRVATGQTVSTRAlitaageplglGDHITTRRNDRNLGVANR 735
Cdd:TIGR01448 541 IPGADI--QVLApmykgplgidalnqhlqalLNPYQKGQGGIEIAEGEYRK-----------GDRVMQTKNDYNNEIFNG 607
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 736 DQWTVTGM-----HNDGGLRVHGRGVERILPAPYVrHHVELAYATTVHGAQGETVDHAHLLIGEATGAAGA----YVGMT 806
Cdd:TIGR01448 608 DLGMIVKIegakqGKKDQVVVDFDGNEVELTRAEL-FNLTLAYATSIHKSQGSEFPTVILPIHTAHMRMLYrnllYTALT 686
|
...
gi 2045874931 807 RGR 809
Cdd:TIGR01448 687 RAK 689
|
|
| PRK13826 |
PRK13826 |
Dtr system oriT relaxase; Provisional |
413-809 |
8.93e-15 |
|
Dtr system oriT relaxase; Provisional
Pssm-ID: 237524 [Multi-domain] Cd Length: 1102 Bit Score: 79.05 E-value: 8.93e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 413 TSHDVLDVETELVTR---LAARAEQPATPSWIGLlAFGRE--LDPAQRRVVAALTGTGPLLVIEGAAGAGKTSTLDVARR 487
Cdd:PRK13826 341 TTRAMIRLEAEMARRaiwLSGRSSHGVREAVLAA-TFARHarLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMKAARE 419
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 488 LVEIRSHRLVVATPTLKAARAAEAQLGTDAFS-AAWLVhqhgyrwdtdgRWTRTNAQPDTRArlrpgdVLLVDEAGMLDQ 566
Cdd:PRK13826 420 AWEAAGYRVVGGALAGKAAEGLEKEAGIQSRTlSSWEL-----------RWNQGRDQLDNKT------VFVLDEAGMVAS 482
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 567 DTARALLTIADQADARVAFVGDRHQLPAVGRGGVLDH-AARWARPEaclaLDTVHRFSDPEYAALSLLMRTGqDPGTVFD 645
Cdd:PRK13826 483 RQMALFVEAVTRAGAKLVLVGDPEQLQPIEAGAAFRAiADRIGYAE----LETIYRQREQWMRDASLDLARG-NVGKALD 557
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 646 ALHRRGQIAVHR---SEVERLAAVAETAQDGGR---IIADTREQVTALNAAIRDQRVATGQTVSTRALITAAGE-PLGLG 718
Cdd:PRK13826 558 AYRANGRVIGSRlkaEAVESLIADWNRDYDPTKttlILAHLRRDVRMLNEMARAKLVERGIVGEGHAFRTADGErRFAAG 637
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 719 DHITTRRNDRNLGVANrdqwtvtGMHNDGGLRVHGRGVERILPAPYVRH---------HVELAYATTVHGAQGETVDHAH 789
Cdd:PRK13826 638 DQIVFLKNEGSLGVKN-------GMIGKVVEAAPNRIVAEIGEGEHRRQvtveqrfynNLDHGYATTIHKSQGATVDRVK 710
|
410 420
....*....|....*....|
gi 2045874931 790 LLIGEATGAAGAYVGMTRGR 809
Cdd:PRK13826 711 VLASLSLDRHLTYVAMTRHR 730
|
|
| AAA_19 |
pfam13245 |
AAA domain; |
454-597 |
2.94e-11 |
|
AAA domain;
Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 61.85 E-value: 2.94e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 454 QRRVVAALTGTGPLLVIeGAAGAGKTSTLD-VARRLVEIRSH--RLVVATPTLKAA-RAAEAqLGTDAFSAAWLVhqhGY 529
Cdd:pfam13245 1 QREAVRTALPSKVVLLT-GGPGTGKTTTIRhIVALLVALGGVsfPILLAAPTGRAAkRLSER-TGLPASTIHRLL---GF 75
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2045874931 530 RWDTDGRWTRTNAQPdtrarlRPGDVLLVDEAGMLDQDTARALL-TIADqaDARVAFVGDRHQLPAVGR 597
Cdd:pfam13245 76 DDLEAGGFLRDEEEP------LDGDLLIVDEFSMVDLPLAYRLLkALPD--GAQLLLVGDPDQLPSVGP 136
|
|
| relax_trwC |
TIGR02686 |
conjugative relaxase domain, TrwC/TraI family; This domain is in the N-terminal (relaxase) ... |
26-318 |
4.70e-10 |
|
conjugative relaxase domain, TrwC/TraI family; This domain is in the N-terminal (relaxase) region of TrwC, a relaxase-helicase that acts in plasmid R388 conjugation. The relaxase domain has DNA cleavage and strand transfer activities. Plasmid transfer protein TraI is also a member of this domain family. Members of this family on bacterial chromosomes typically are found near other genes typical of conjugative plasmids and appear to mark integrated plasmids. [Mobile and extrachromosomal element functions, Plasmid functions]
Pssm-ID: 274258 [Multi-domain] Cd Length: 283 Bit Score: 61.70 E-value: 4.70e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 26 VDDYYLAEGTGVatRYvatappavGGRSIAAVQDGGTLDGDAYERWVAGyDIATGAAKGRLRTDERGLRF-VEVVVNGPK 104
Cdd:TIGR02686 8 GDNYYLKDSDAG--RW--------LGKGAQELGLSGEVEKKQFEALLEG-RLPDGTRLGRIEDRQSKHRPgFDLTFSAPK 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 105 TWSLAATL--HPEIAAAYDASQDRAATEIIAWLAEhatTRVGPRGRQVQVPVEQLEAAVVRHYTSRAGDPHRHLHLQI-N 181
Cdd:TIGR02686 77 SVSILALVggDPRLIDAHDEAVKFTLEQLEKEAAA---ARVTQDGEIEFEKTGNLVIALFRHDTSRANDPQLHTHAVVaN 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 182 ARVFAAGRWRGLHS--VGVVDSIEAINGIGHAAVAC-DPQFRETLTAHGYTL--DPKSG--EI-----TQLKpyagAFSA 249
Cdd:TIGR02686 154 MTRRSDGKWRSLSSdkKGKHGFIEEIYKNQIYLGLLyRAKLANELKELGYQTrvYGKHGnfEIdgvpeEVIE----AFSK 229
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2045874931 250 RAAQIGRNIDrhEAAWRTEhpgeepgpqlrRAWDRRAWATaRPDKVIPTDGAqLAERWRDELRGLGFTP 318
Cdd:TIGR02686 230 RRQQIEEWVA--ERGWSLA-----------KSRDTAALDT-RKKKTVHDREA-LREEWQQTAKELGFDP 283
|
|
| recD |
PRK10875 |
exodeoxyribonuclease V subunit alpha; |
456-791 |
5.17e-10 |
|
exodeoxyribonuclease V subunit alpha;
Pssm-ID: 236783 [Multi-domain] Cd Length: 615 Bit Score: 63.04 E-value: 5.17e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 456 RVVAALTGTGPLLVIEGAAGAGKTSTldVAR------RLVEIRSHRLVVATPTLKAAraaeAQLgTDAFSAAwlVHQHGY 529
Cdd:PRK10875 158 KVAAAVALTRRISVISGGPGTGKTTT--VAKllaaliQLADGERCRIRLAAPTGKAA----ARL-TESLGKA--LRQLPL 228
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 530 rwdTDGRWTR-----------TNAQPDTrARLRPG-------DVLLVDEAGMLDQdTARALLTIADQADARVAFVGDRHQ 591
Cdd:PRK10875 229 ---TDEQKKRipeeastlhrlLGAQPGS-QRLRYHagnplhlDVLVVDEASMVDL-PMMARLIDALPPHARVIFLGDRDQ 303
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 592 LPAVGRGGVLDHAARWARpeaclaldtvHRFSDPEYAALSLLM------RTGQDPGTVFDA--LHRR----------GQI 653
Cdd:PRK10875 304 LASVEAGAVLGDICRFAE----------AGYSAERAQQLSRLTgchlpaGTGTEAASVRDSlcLLRKsyrfgsdsgiGQL 373
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 654 --AVHRSEVERLAAV------------AETAQDGGRIIADT-----------REQVTA-----------LNAAIRD---- 693
Cdd:PRK10875 374 aaAVNRGDKRAAKAVfqqgfsdiekrpLQSGEDYQAMLEEAlagygryldllAARAEPeailaafnryqLLCALREgpfg 453
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 694 -----QRVAtgQTVSTRALITAAGEPLG---LGDHITTRRNDRNLGVANRDqWTVTGMHNDGGLRVH----GRGVERILP 761
Cdd:PRK10875 454 vaglnERIE--QALQQKRLIRRPSGPHSrwyEGRPVMIARNDSALGLFNGD-IGIALDRGQGELRVWfqlpDGNIKSVQP 530
|
410 420 430
....*....|....*....|....*....|
gi 2045874931 762 APYVRHhvELAYATTVHGAQGETVDHAHLL 791
Cdd:PRK10875 531 SRLPEH--ETAWAMTVHKSQGSEFDHTALV 558
|
|
| PksD |
COG3321 |
Acyl transferase domain in polyketide synthase (PKS) enzymes [Secondary metabolites ... |
281-783 |
4.45e-09 |
|
Acyl transferase domain in polyketide synthase (PKS) enzymes [Secondary metabolites biosynthesis, transport and catabolism];
Pssm-ID: 442550 [Multi-domain] Cd Length: 1386 Bit Score: 60.66 E-value: 4.45e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 281 AWDRRAWATARPDKVIPTDGAQLAERWRDELRGLGFTPPHSPTQDGHRPWAAIGRVNRTAVADLVLTRLGARR------S 354
Cdd:COG3321 867 PFQREDAAAALLAAALAAALAAAAALGALLLAALAAALAAALLALAAAAAAALALAAAALAALLALVALAAAAaallalA 946
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 355 AWNAADIRGEVERIIAVAGIVTPAPVRRELVEDLTSRTVDRCELLLTREDVPEHIRALTSHDVLDVETELVTRLAARAEQ 434
Cdd:COG3321 947 AAAAAAAAALAAAEAGALLLLAAAAAAAAAAAAAAAAAAAAAAAAAAAALAAAAALALLAAAALLLAAAAAAAALLALAA 1026
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 435 PATPSWIGLLAFGRELD-----PAQRRVVAALTGTGPLLVIEGAAGAGKTSTLDVARRLVEIRSHRLVVATPTLKAARAA 509
Cdd:COG3321 1027 LLAAAAAALAAAAAAAAaaaalAALAAAAAAAAALALALAALLLLAALAELALAAAALALAAALAAAALALALAALAAAL 1106
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 510 EAQLGTDAFSAAWLVHQHGYRWDTDGRWTRTNAQPDTRARLRPGDVLLVDEAGMLDQDTARALLTIADQADARVAFVGDR 589
Cdd:COG3321 1107 LLLALLAALALAAAAAALLALAALLAAAAAAAALAAAAAAAAALALAAAAAALAAALAAALLAAAALLLALALALAAALA 1186
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 590 HQLPAVGRGGVLDHAARWARPEACLALDTVHRFSDPEYAALSLLMRTGQDPGTVFDALHRRGQIAVHRSEVERLAAVAET 669
Cdd:COG3321 1187 AALAGLAALLLAALLAALLAALLALALAALAAAAAALLAAAAAAAALALLALAAAAAAVAALAAAAAALLAALAALALLA 1266
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 670 AQDGGRIIADTREQVTALNAAIRDQRVATGQTVSTRALITAAGEPLGLGDHITTRRNDRNLGVANRDQWTVTGMHNDGGL 749
Cdd:COG3321 1267 AAAGLAALAAAAAAAAAALALAAAAAAAAAALAALLAAAAAAAAAAAAAAAAAALAAALLAAALAALAAAVAAALALAAA 1346
|
490 500 510
....*....|....*....|....*....|....
gi 2045874931 750 RVHGRGVERILPAPYVRHHVELAYATTVHGAQGE 783
Cdd:COG3321 1347 AAAAAAAAAAAAAAAALAAAAGAAAAAAALALAA 1380
|
|
| SF1_C_RecD |
cd18809 |
C-terminal helicase domain of RecD family helicases; RecD is a member of the RecBCD (EC 3.1.11. ... |
771-813 |
5.22e-08 |
|
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: 51.02 E-value: 5.22e-08
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 2045874931 771 LAYATTVHGAQGETVDHAHLLIGEATGAAG---AYVGMTRGRRTNT 813
Cdd:cd18809 32 QAYAMTIHKSQGSEFDRVIVVLPTSHPMLSrglLYTALTRARKLLT 77
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
451-596 |
6.71e-07 |
|
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch repair, nucleotide excision repair, and recombinational repair. It plays a critical role in maintaining genomic stability and facilitating DNA lesion repair in many prokaryotic species including Helicobacter pylori and Escherichia coli. UvrD 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: 350690 [Multi-domain] Cd Length: 189 Bit Score: 50.59 E-value: 6.71e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 451 DPAQRRvvAALTGTGPLLVIEGAaGAGKTSTLdVAR--RLVE---IRSHRLVVATPTLKAAR--------------AAEA 511
Cdd:cd17932 1 NPEQRE--AVTHPDGPLLVLAGA-GSGKTRVL-THRiaYLILeggVPPERILAVTFTNKAAKemrerlrkllgeqlASGV 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 512 QLGT-DAFSAAWLvhqhGYRWDTDGRWTRT----NAQPDTRARLRPG-DVLLVDEAgmldQDTARALLTIADqadarvAF 585
Cdd:cd17932 77 WIGTfHSFALRIL----RRYGDFDDLLLYAlellEENPDVREKLQSRfRYILVDEY----QDTNPLQYELLK------LL 142
|
170
....*....|.
gi 2045874931 586 VGDRHQLPAVG 596
Cdd:cd17932 143 AGDGKNLFVVG 153
|
|
| PRK14712 |
PRK14712 |
conjugal transfer nickase/helicase TraI; Provisional |
666-829 |
7.51e-06 |
|
conjugal transfer nickase/helicase TraI; Provisional
Pssm-ID: 237796 [Multi-domain] Cd Length: 1623 Bit Score: 49.86 E-value: 7.51e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 666 VAETAQDGGRIIADTREQVTALNAAirDQRVATGQTVSTRALITaagepLGLGDHITTRRNDRNLGVANRDQWTVTGMHN 745
Cdd:PRK14712 1164 IAGISKDDGLITLQDAEGNTRLISP--REAVAEGVTLYTPDTIR-----VGTGDRIRFTKSDRERGYVANSVWTVTAVSG 1236
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 746 DGGLRVHGRGVERILPA-PYVRHHVELAYATTVHGAQGETVDHAHLLIGEA------TGAAGAYVGMTRGRRTNTAHlva 818
Cdd:PRK14712 1237 DSVTLSDGQQTRVIRPGqERAEQHIDLAYAITAHGAQGASETFAIALEGTEgnrklmAGFESAYVALSRMKQHVQVY--- 1313
|
170
....*....|.
gi 2045874931 819 ensDDARDQWT 829
Cdd:PRK14712 1314 ---TDNRQGWT 1321
|
|
| UvrD |
COG0210 |
Superfamily I DNA or RNA helicase [Replication, recombination and repair]; |
449-517 |
8.04e-06 |
|
Superfamily I DNA or RNA helicase [Replication, recombination and repair];
Pssm-ID: 439980 [Multi-domain] Cd Length: 721 Bit Score: 49.55 E-value: 8.04e-06
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2045874931 449 ELDPAQRRVVAAltGTGPLLVIeGAAGAGKTSTLdVAR--RLVE---IRSHRLVVATPTLKAARA----AEAQLGTDA 517
Cdd:COG0210 6 GLNPEQRAAVEH--PEGPLLVL-AGAGSGKTRVL-THRiaYLIAeggVDPEQILAVTFTNKAAREmrerIEALLGRLA 79
|
|
| PRK13709 |
PRK13709 |
conjugal transfer nickase/helicase TraI; Provisional |
650-830 |
1.19e-05 |
|
conjugal transfer nickase/helicase TraI; Provisional
Pssm-ID: 237478 [Multi-domain] Cd Length: 1747 Bit Score: 49.41 E-value: 1.19e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 650 RGQIAVHRSEVERLAAVAetaQDGGRIIADTREQVTALNAAIrdQRVATGQTVSTRALITaagepLGLGDHITTRRNDRN 729
Cdd:PRK13709 1280 RGALALVDNVYHRIAGID---KDDGLITLRDAEGNTRLISPR--EAVAEGVTLYTPDTIR-----VGTGDRMRFTKSDRE 1349
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 730 LGVANRDQWTVTGMHNDGgLRVHGRGVERILPAPYVR--HHVELAYATTVHGAQGETVDHAHLLIGEA------TGAAGA 801
Cdd:PRK13709 1350 RGYVANSVWTVTAVSGDS-VTLSDGQQTRVIRPGQERaeQHIDLAYAITAHGAQGASETYAIALEGTEggrkqmAGFESA 1428
|
170 180
....*....|....*....|....*....
gi 2045874931 802 YVGMTRGRRtntaHlvAENSDDARDQWTA 830
Cdd:PRK13709 1429 YVALSRMKQ----H--VQVYTDNRQGWTD 1451
|
|
| TraI_TIGR |
TIGR02760 |
conjugative transfer relaxase protein TraI; This protein is a component of the relaxosome ... |
412-867 |
3.41e-05 |
|
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: 47.98 E-value: 3.41e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 412 LTSHDVLDVETELVTRLAARAE--QPATPSWIG--LLAFGRELDPAQRRVVAALTGTG-PLLVIEGAAGAGKTSTLDVAR 486
Cdd:TIGR02760 978 WTTRAALRTETSILLHILPGKEtvTPLATRAQVflNLELLERLTHGQKQAIHLIISTKdRFVAVQGLAGVGKTTMLESRY 1057
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 487 RLV----EIRSHRLVVATPTLKAARAAEAQlGTDAFSAAWLVHqhgyrwdtdgrwtrtnaqpDTRARLR-PGD----VLL 557
Cdd:TIGR02760 1058 KPVlqafESEQLQVIGLAPTHEAVGELKSA-GVQAQTLDSFLT-------------------DISLYRNsGGDfrntLFI 1117
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 558 VDEAGMLDQDTARALLTIADQADARVAFVGDRHQLPAVGRGgvLDHAARWARPEACLAL--DTVHRFSDPEY-AALSLLM 634
Cdd:TIGR02760 1118 LDESSMVSNFQLTHATELVQKSGSRAVSLGDIAQLQSLAAG--KPFELAITFDIIDTAImkEIVRQNNSAELkAAHNSLD 1195
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 635 RtgQDPGTVFDALHRRGQIAVHRSE----VER-----------LAAVAETAQDGGR------------------------ 675
Cdd:TIGR02760 1196 K--RSNPKALELLKNQNPLQHELMQnaamPEIasdeqglqkhdLAKLAVNTEKPKKaqpdatvtlyreivkdylsrtpef 1273
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 676 -----IIADTREQVTALNAAIRD----QRVATGQTVSTRALITA------------------------------------ 710
Cdd:TIGR02760 1274 rentlIIAHTNNDRTGIYPFIREglikQKELSKQQVTVPRLRSVnisspelktmmpfekgavlrlkkdayltiadidreh 1353
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 711 ---------AGE----------------------PLGLGDHITTRRNDRNLGVANRDQWTVTGM-HNDGGLRVHGRGVER 758
Cdd:TIGR02760 1354 gkltvadikTGSerdilprqldhtftslysdselPLAKGDKIRLRATDKNRGIKANEVYTVTQVvNGLSVQLSKVKNSLS 1433
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 759 ILPAPYVRHHVELAYATTVHGAQGETVDHAHLLI---GEATGAAGAYVGMTRgrrtnTAHLVAENSDDaRDQWTAVFARD 835
Cdd:TIGR02760 1434 LKPIQAKDKHWDYAYTRTADSAQGATYTFVIALIkgrLALTNYRSAYIDLTR-----ASHHVELYTDN-KEGTVKSWKQR 1507
|
570 580 590
....*....|....*....|....*....|....*...
gi 2045874931 836 RADLGPA------SARERALENIGRHGPHASTRQQLRD 867
Cdd:TIGR02760 1508 EANKTSAveteedYRPKQSTQFNNRAQPHEEPKYQQKN 1545
|
|
| DEXSc_Pif1_like |
cd18037 |
DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like ... |
454-599 |
1.16e-04 |
|
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: 43.78 E-value: 1.16e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 454 QRRVVAALTgTGPLLVIEGAAGAGKTSTLDVARRLVEIRSHRLVVATPTLKAARAAEaqlGTDAFSAAWLVHQHGYRWDT 533
Cdd:cd18037 2 QRRVLDLVL-DGKNVFFTGSAGTGKSYLLRRIIRALPSRPKRVAVTASTGIAACNIG---GTTLHSFAGIGLGSEPAEDL 77
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2045874931 534 DGRWTRtnaQPDTRARLRPGDVLLVDEAGMLDqdtARALLTIADQADA-----------RVAFVGDRHQLPAVGRGG 599
Cdd:cd18037 78 LERVKR---SPYLVQRWRKCDVLIIDEISMLD---ADLFDKLDRVAREvrgsdkpfggiQLILCGDFLQLPPVTKNS 148
|
|
| DExxQc_SF1-N |
cd17914 |
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ... |
467-610 |
1.63e-04 |
|
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Like SF2, they do not form toroidal, predominantly hexameric structures like SF3-6. Their helicase core is surrounded by C and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains or domains engaged in protein-protein interactions. SF1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 438706 [Multi-domain] Cd Length: 121 Bit Score: 42.09 E-value: 1.63e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 467 LLVIEGAAGAGKTSTLdvarrlveirSHRLvvatptlkaaraaeaqlgtdafsaAWLVHQ-HGYRWdtdgrwtRTNAQPD 545
Cdd:cd17914 1 LSLIQGPPGTGKTRVL----------VKIV------------------------AALMQNkNGEPG-------RILLVTP 39
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2045874931 546 TRARLRPGDVLLVDEAGMLDQ-DTARALLTIADQAdaRVAFVGDRHQLPAVGRGGVLDHAA-------RWARP 610
Cdd:cd17914 40 TNKAAAQLDNILVDEAAQILEpETSRLIDLALDQG--RVILVGDHDQLGPVWRGAVLAKICneqslftRLVRL 110
|
|
| DNA2 |
COG1112 |
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]; |
20-595 |
1.61e-03 |
|
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];
Pssm-ID: 440729 [Multi-domain] Cd Length: 819 Bit Score: 42.42 E-value: 1.61e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 20 EADRSRVDDYYLAEGTGVATRYVATAPPAVGGRSIAAVQDGGTLDGDAYERWVAGYDIATGAAKGRLRTDERGLRFVEVV 99
Cdd:COG1112 19 ALLALLLALALLLDLLLLLLLAAALLLLALALALLLLALRALELLDLLAALALLLLLLLLDAELLLLALRALLLLLAAEL 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 100 VNGPKTWSLAATLHPEIAAAYDASQDRAATEIIAWLAEHATTRVGPRGRQVQVPVEQLEAAVVRHYTSRAGDPHR-HLHL 178
Cdd:COG1112 99 LLLLLLLLLLAALLLALAALLLALALLLLALALLALLALLLAELLDLLAALAALAALLAALLLLLLLLAALLLLDlRLLA 178
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 179 QINARVFAAGRWRGLHSVGVVDSIEAINGIGHAAVACDPQFRETLTAHGYTLDPKSGEITQLKPYAGAFSARAAQIGRNI 258
Cdd:COG1112 179 LLELLLAAALALALLALLALALEDELALLLLLLLLALLLLLALLLLLDALLLLLAALALLALALLLALLLLLLALLLLAA 258
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 259 DRHEAAWRTEHPGEEPGPQLRRAWDRRAWATARPDKVIPTDGAQLAERWRDELRGLGFTPPHSPTQDGHRPWAAIGRVNR 338
Cdd:COG1112 259 LALLRAALRLDLLAALELLAALSLALLALLAALALALLLLAALALLLALALAALLALLALLALLAARLAAALAALLLLLL 338
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 339 TAVADLVLTRLGARRSAWNAADIRGEVERIIAVAGIVTPAPVRRELVEDLTSRTVDRCELLLTREDVPEHIRALTSHDVL 418
Cdd:COG1112 339 LEELALLAALLLLLELALLRLLAALLLALALLLLLALEELLLLALLRLLAEGLALLLLLLLAALLRLARALLLLALLLAA 418
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 419 DVETELVTRLAARAEQPATPSWIGLLAFGRELDPAQRRVVAALTGTGPLLVIEGAAGAGKTSTLDVARRLVEIRSHRLVV 498
Cdd:COG1112 419 AAAALAALLLLALALLAALLALLLLLAAALAALLALLLLLLLALAALLLLLAAAAALLALALLESLLEELIEEHPEELEK 498
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 499 ATPTLKAARAAEAQLGTDAFSAAWLVHQHGYRWDTDGR-WTRTNAQPDTRARLRPG--DVLLVDEAGMLDQDTARALLTI 575
Cdd:COG1112 499 LIAELREAARLRRALRRELKKRRELRKLLWDALLELAPvVGMTPASVARLLPLGEGsfDLVIIDEASQATLAEALGALAR 578
|
570 580
....*....|....*....|
gi 2045874931 576 ADqadaRVAFVGDRHQLPAV 595
Cdd:COG1112 579 AK----RVVLVGDPKQLPPV 594
|
|
| PRK13709 |
PRK13709 |
conjugal transfer nickase/helicase TraI; Provisional |
122-316 |
1.69e-03 |
|
conjugal transfer nickase/helicase TraI; Provisional
Pssm-ID: 237478 [Multi-domain] Cd Length: 1747 Bit Score: 42.47 E-value: 1.69e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 122 ASQDRAATEIIAWLAEHATTRVGPRGRQVQVPVEQLEAAVVRHYTSRAGDPHRHLHLQINARVFAAGRWRGLHS--VGVV 199
Cdd:PRK13709 103 EAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLVMALFNHDTSRDQDPQLHTHAVVANVTQHNGKWKTLSSdkVGKT 182
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2045874931 200 DSIEAI--NGIGHAAVAcDPQFRETLTAHGYTLDP--KSGeITQLK--PYAgAFSARAAQIgrnidrHEAAwrtehpGEE 273
Cdd:PRK13709 183 GFIENVyaNQIAFGKIY-REALKEDVEALGYETEVvgKHG-MWEMKgvPVE-AFSSRSQEI------REAV------GED 247
|
170 180 190 200
....*....|....*....|....*....|....*....|...
gi 2045874931 274 PGPQLRrawDRRAWATaRPDKVIPtDGAQLAERWRDELRGLGF 316
Cdd:PRK13709 248 ASLKSR---DVAALDT-RKSKQHV-DPEVRMAEWMQTLKETGF 285
|
|
| |
