|
Name |
Accession |
Description |
Interval |
E-value |
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
17-468 |
4.26e-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: 4.26e-85
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 17 KPTDEQEKAMECIAdflfkpENDSLLLLKGYAGTGKTTLVGAVVRTLSEFHAGYVLMASTGRAAKVFSRYSGFSAYTIHK 96
Cdd:COG0507 124 TLSDEQREAVALAL------TTRRVSVLTGGAGTGKTTTLRALLAALEALGLRVALAAPTGKAAKRLSESTGIEARTIHR 197
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 97 KIYRQKNFsnelDNFSLNDN--LHKNTLFIVDEASMISNDglsgasfgsgrLLDDLIEYVYSGhGCRLLIIGDEAQLPPV 174
Cdd:COG0507 198 LLGLRPDS----GRFRHNRDnpLTPADLLVVDEASMVDTR-----------LMAALLEALPRA-GARLILVGDPDQLPSV 261
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 175 GEEesPALSAEILGGYgldVTECLLTEVIRYSGRNGILSNATMLRERMAADDIydlpklsLKGYGDISSVP---GSELIE 251
Cdd:COG0507 262 GAG--AVLRDLIESGT---VPVVELTEVYRQADDSRIIELAHAIREGDAPEAL-------NARYADVVFVEaedAEEAAE 329
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 252 AINTSYN--EAGMDETMIICRSNKRAYLYNKGIRNTIL-----------YREDELNTGDILMIAKNNYHWtadckemdFI 318
Cdd:COG0507 330 AIVELYAdrPAGGEDIQVLAPTNAGVDALNQAIREALNpagelerelaeDGELELYVGDRVMFTRNDYDL--------GV 401
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 319 ANGDIAVVRRVRRTSEMygfrfadVVLSFPDHNDIELelkilldtlhsdypslskedsdrlfnavmedysditnkrermk 398
Cdd:COG0507 402 FNGDIGTVLSIDEDEGR-------LTVRFDGREIVTY------------------------------------------- 431
|
410 420 430 440 450 460 470
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 399 klkedSFYNALQVKYAYAVTCHKAQGGQWKRIFIDQGYITDETFTPdyyRWLYTALTRASEKLYLVNWPE 468
Cdd:COG0507 432 -----DPSELDQLELAYAITVHKSQGSTFDRVILVLPSEHSPLLSR---ELLYTALTRARELLTLVGDRD 493
|
|
| 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 |
1.02e-36 |
|
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: 132.29 E-value: 1.02e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 21 EQEKAMECIAdflfkpeNDSLLLLKGYAGTGKTTLVGAVVRTLSEFHAGYVLMASTGRAAKVFSRYSGFSAYTIHKKIYR 100
Cdd:cd17933 1 EQKAAVRLVL-------RNRVSVLTGGAGTGKTTTLKALLAALEAEGKRVVLAAPTGKAAKRLSESTGIEASTIHRLLGI 73
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2181615081 101 QKNFSNELDNfslNDNLHKNTLFIVDEASMISNdglsgasfgsgRLLDDLIEYVYsgHGCRLLIIGDEAQLPPVG 175
Cdd:cd17933 74 NPGGGGFYYN---EENPLDADLLIVDEASMVDT-----------RLMAALLSAIP--AGARLILVGDPDQLPSVG 132
|
|
| AAA_30 |
pfam13604 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
19-175 |
2.16e-23 |
|
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: 97.25 E-value: 2.16e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 19 TDEQEKAMECIADflfkpENDSLLLLKGYAGTGKTTLVGAVVRTLSEfhAGY--VLMASTGRAAKVFSRYSGFSAYTIHK 96
Cdd:pfam13604 3 NAEQAAAVRALLT-----SGDRVAVLVGPAGTGKTTALKALREAWEA--AGYrvIGLAPTGRAAKVLGEELGIPADTIAK 75
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2181615081 97 KIYRQKNFsneldnfslnDNLHKNTLFIVDEASMISNdglsgasfgsgRLLDDLIEYVySGHGCRLLIIGDEAQLPPVG 175
Cdd:pfam13604 76 LLHRLGGR----------AGLDPGTLLIVDEAGMVGT-----------RQMARLLKLA-EDAGARVILVGDPRQLPSVE 132
|
|
| recD |
TIGR01447 |
exodeoxyribonuclease V, alpha subunit; This family describes the exodeoxyribonuclease V alpha ... |
41-469 |
2.07e-13 |
|
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: 72.49 E-value: 2.07e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 41 LLLLKGYAGTGKTTLV----GAVVRTL-SEFHAGYVLMASTGRAA--------KVFSRYSGF---------SAYTIHK-- 96
Cdd:TIGR01447 161 FSLITGGPGTGKTTTVarllLALVKQSpKQGKLRIALAAPTGKAAarlaeslrKAVKNLAAAealiaalpsEAVTIHRll 240
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 97 -KIYRQKNFSNELDNfslndNLHKNTLfIVDEASMISNDGLSgasfgsgRLLDDLIEYVysghgcRLLIIGDEAQLPPVg 175
Cdd:TIGR01447 241 gIKPDTKRFRHHERN-----PLPLDVL-VVDEASMVDLPLMA-------KLLKALPPNT------KLILLGDKNQLPSV- 300
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 176 eeESPALSAEILGGYGL-DVTECLLTEVIRYSGRNGILSNATMLRE--RMAADD-IYDLPKLSLKGYGD----------- 240
Cdd:TIGR01447 301 --EAGAVLGDLCELASIgKSILYALCKKINSKTRNPLSDNVCFLKTshRFGKDSgIGQLAKAINSGDIEavlnnlrsgql 378
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 241 --ISSVPGSE-LIEAINTSY-------------NEAG-MDETMIICRS--------------NKR--AYLYNKGIRNtil 287
Cdd:TIGR01447 379 ieFEFLNSKEdAIERLKNLYvkyrtflqklaalSDAKeILETFDRLRLltalrdgpfgvlglNRRieQELQEKYFDP--- 455
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 288 yREDELNTGDILMIAKNNYHWTadckemdfIANGDIAVVRRVRrtsemygFRFADVVLSFPDHndielELKILLDTLHsd 367
Cdd:TIGR01447 456 -DEEGWYIGRPIMVTENDYTLG--------LFNGDIGVLLRDP-------DGILTVWFHFADG-----SKAVLPSRLP-- 512
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 368 ypslskedsdrlfnavmedysditnkrermkklkedsfynalQVKYAYAVTCHKAQGGQWKRI--FIDQGYitDETFTPD 445
Cdd:TIGR01447 513 ------------------------------------------NYETAFAMTVHKSQGSEFDHVilILPNGN--SPVLTRE 548
|
490 500
....*....|....*....|....
gi 2181615081 446 YyrwLYTALTRASEKLYLVNWPES 469
Cdd:TIGR01447 549 L---LYTGITRAKDQLSVWSDKET 569
|
|
| PRK13826 |
PRK13826 |
Dtr system oriT relaxase; Provisional |
19-174 |
5.41e-08 |
|
Dtr system oriT relaxase; Provisional
Pssm-ID: 237524 [Multi-domain] Cd Length: 1102 Bit Score: 55.56 E-value: 5.41e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 19 TDEQEKAMECIAdflfKPENDSLLLlkGYAGTGKTTLVGAVvRTLSEFhAGY--VLMASTGRAAKVFSRYSGFSAYTIHK 96
Cdd:PRK13826 383 SDEQKTAIEHVA----GPARIAAVV--GRAGAGKTTMMKAA-REAWEA-AGYrvVGGALAGKAAEGLEKEAGIQSRTLSS 454
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2181615081 97 KIYRQKNFSNELDNfslndnlhkNTLFIVDEASMISNDGLSGasfgsgrllddLIEYVySGHGCRLLIIGDEAQLPPV 174
Cdd:PRK13826 455 WELRWNQGRDQLDN---------KTVFVLDEAGMVASRQMAL-----------FVEAV-TRAGAKLVLVGDPEQLQPI 511
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
17-468 |
4.26e-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: 4.26e-85
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 17 KPTDEQEKAMECIAdflfkpENDSLLLLKGYAGTGKTTLVGAVVRTLSEFHAGYVLMASTGRAAKVFSRYSGFSAYTIHK 96
Cdd:COG0507 124 TLSDEQREAVALAL------TTRRVSVLTGGAGTGKTTTLRALLAALEALGLRVALAAPTGKAAKRLSESTGIEARTIHR 197
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 97 KIYRQKNFsnelDNFSLNDN--LHKNTLFIVDEASMISNDglsgasfgsgrLLDDLIEYVYSGhGCRLLIIGDEAQLPPV 174
Cdd:COG0507 198 LLGLRPDS----GRFRHNRDnpLTPADLLVVDEASMVDTR-----------LMAALLEALPRA-GARLILVGDPDQLPSV 261
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 175 GEEesPALSAEILGGYgldVTECLLTEVIRYSGRNGILSNATMLRERMAADDIydlpklsLKGYGDISSVP---GSELIE 251
Cdd:COG0507 262 GAG--AVLRDLIESGT---VPVVELTEVYRQADDSRIIELAHAIREGDAPEAL-------NARYADVVFVEaedAEEAAE 329
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 252 AINTSYN--EAGMDETMIICRSNKRAYLYNKGIRNTIL-----------YREDELNTGDILMIAKNNYHWtadckemdFI 318
Cdd:COG0507 330 AIVELYAdrPAGGEDIQVLAPTNAGVDALNQAIREALNpagelerelaeDGELELYVGDRVMFTRNDYDL--------GV 401
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 319 ANGDIAVVRRVRRTSEMygfrfadVVLSFPDHNDIELelkilldtlhsdypslskedsdrlfnavmedysditnkrermk 398
Cdd:COG0507 402 FNGDIGTVLSIDEDEGR-------LTVRFDGREIVTY------------------------------------------- 431
|
410 420 430 440 450 460 470
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 399 klkedSFYNALQVKYAYAVTCHKAQGGQWKRIFIDQGYITDETFTPdyyRWLYTALTRASEKLYLVNWPE 468
Cdd:COG0507 432 -----DPSELDQLELAYAITVHKSQGSTFDRVILVLPSEHSPLLSR---ELLYTALTRARELLTLVGDRD 493
|
|
| 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 |
1.02e-36 |
|
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: 132.29 E-value: 1.02e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 21 EQEKAMECIAdflfkpeNDSLLLLKGYAGTGKTTLVGAVVRTLSEFHAGYVLMASTGRAAKVFSRYSGFSAYTIHKKIYR 100
Cdd:cd17933 1 EQKAAVRLVL-------RNRVSVLTGGAGTGKTTTLKALLAALEAEGKRVVLAAPTGKAAKRLSESTGIEASTIHRLLGI 73
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2181615081 101 QKNFSNELDNfslNDNLHKNTLFIVDEASMISNdglsgasfgsgRLLDDLIEYVYsgHGCRLLIIGDEAQLPPVG 175
Cdd:cd17933 74 NPGGGGFYYN---EENPLDADLLIVDEASMVDT-----------RLMAALLSAIP--AGARLILVGDPDQLPSVG 132
|
|
| AAA_30 |
pfam13604 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
19-175 |
2.16e-23 |
|
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: 97.25 E-value: 2.16e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 19 TDEQEKAMECIADflfkpENDSLLLLKGYAGTGKTTLVGAVVRTLSEfhAGY--VLMASTGRAAKVFSRYSGFSAYTIHK 96
Cdd:pfam13604 3 NAEQAAAVRALLT-----SGDRVAVLVGPAGTGKTTALKALREAWEA--AGYrvIGLAPTGRAAKVLGEELGIPADTIAK 75
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2181615081 97 KIYRQKNFsneldnfslnDNLHKNTLFIVDEASMISNdglsgasfgsgRLLDDLIEYVySGHGCRLLIIGDEAQLPPVG 175
Cdd:pfam13604 76 LLHRLGGR----------AGLDPGTLLIVDEAGMVGT-----------RQMARLLKLA-EDAGARVILVGDPRQLPSVE 132
|
|
| AAA_19 |
pfam13245 |
AAA domain; |
38-175 |
2.69e-17 |
|
AAA domain;
Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 78.03 E-value: 2.69e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 38 NDSLLLLKGYAGTGKTTLVGAVVRTLSEFHAGY---VLMASTGRAAKVFSRYSGFSAYTIHKKIyrqkNFSNELDNFSLN 114
Cdd:pfam13245 10 PSKVVLLTGGPGTGKTTTIRHIVALLVALGGVSfpiLLAAPTGRAAKRLSERTGLPASTIHRLL----GFDDLEAGGFLR 85
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2181615081 115 DNLHKNT--LFIVDEASMISndglsgaSFGSGRLLDDLIEyvysghGCRLLIIGDEAQLPPVG 175
Cdd:pfam13245 86 DEEEPLDgdLLIVDEFSMVD-------LPLAYRLLKALPD------GAQLLLVGDPDQLPSVG 135
|
|
| UvrD_C_2 |
pfam13538 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
413-464 |
3.16e-17 |
|
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: 75.30 E-value: 3.16e-17
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 2181615081 413 YAYAVTCHKAQGGQWKRIFIDQGYITDETFTPDYYRWLYTALTRASEKLYLV 464
Cdd:pfam13538 1 LAYALTVHKAQGSEFPAVFLVDPDLTAHYHSMLRRRLLYTAVTRARKKLVLV 52
|
|
| recD |
TIGR01447 |
exodeoxyribonuclease V, alpha subunit; This family describes the exodeoxyribonuclease V alpha ... |
41-469 |
2.07e-13 |
|
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: 72.49 E-value: 2.07e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 41 LLLLKGYAGTGKTTLV----GAVVRTL-SEFHAGYVLMASTGRAA--------KVFSRYSGF---------SAYTIHK-- 96
Cdd:TIGR01447 161 FSLITGGPGTGKTTTVarllLALVKQSpKQGKLRIALAAPTGKAAarlaeslrKAVKNLAAAealiaalpsEAVTIHRll 240
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 97 -KIYRQKNFSNELDNfslndNLHKNTLfIVDEASMISNDGLSgasfgsgRLLDDLIEYVysghgcRLLIIGDEAQLPPVg 175
Cdd:TIGR01447 241 gIKPDTKRFRHHERN-----PLPLDVL-VVDEASMVDLPLMA-------KLLKALPPNT------KLILLGDKNQLPSV- 300
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 176 eeESPALSAEILGGYGL-DVTECLLTEVIRYSGRNGILSNATMLRE--RMAADD-IYDLPKLSLKGYGD----------- 240
Cdd:TIGR01447 301 --EAGAVLGDLCELASIgKSILYALCKKINSKTRNPLSDNVCFLKTshRFGKDSgIGQLAKAINSGDIEavlnnlrsgql 378
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 241 --ISSVPGSE-LIEAINTSY-------------NEAG-MDETMIICRS--------------NKR--AYLYNKGIRNtil 287
Cdd:TIGR01447 379 ieFEFLNSKEdAIERLKNLYvkyrtflqklaalSDAKeILETFDRLRLltalrdgpfgvlglNRRieQELQEKYFDP--- 455
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 288 yREDELNTGDILMIAKNNYHWTadckemdfIANGDIAVVRRVRrtsemygFRFADVVLSFPDHndielELKILLDTLHsd 367
Cdd:TIGR01447 456 -DEEGWYIGRPIMVTENDYTLG--------LFNGDIGVLLRDP-------DGILTVWFHFADG-----SKAVLPSRLP-- 512
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 368 ypslskedsdrlfnavmedysditnkrermkklkedsfynalQVKYAYAVTCHKAQGGQWKRI--FIDQGYitDETFTPD 445
Cdd:TIGR01447 513 ------------------------------------------NYETAFAMTVHKSQGSEFDHVilILPNGN--SPVLTRE 548
|
490 500
....*....|....*....|....
gi 2181615081 446 YyrwLYTALTRASEKLYLVNWPES 469
Cdd:TIGR01447 549 L---LYTGITRAKDQLSVWSDKET 569
|
|
| 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 |
8.47e-12 |
|
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: 60.65 E-value: 8.47e-12
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|.
gi 2181615081 414 AYAVTCHKAQGGQWKRIFIDQGYiTDETFTPdyyRWLYTALTRASEKLYLV 464
Cdd:cd18809 33 AYAMTIHKSQGSEFDRVIVVLPT-SHPMLSR---GLLYTALTRARKLLTLV 79
|
|
| DEXSc_Pif1_like |
cd18037 |
DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like ... |
21-176 |
2.55e-08 |
|
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: 53.79 E-value: 2.55e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 21 EQEKAMECIadflfkpENDSLLLLKGYAGTGKTTLVGAVVRTLSEFHAGYVLMASTGRAAkvfsrySGFSAYTIHK--KI 98
Cdd:cd18037 1 EQRRVLDLV-------LDGKNVFFTGSAGTGKSYLLRRIIRALPSRPKRVAVTASTGIAA------CNIGGTTLHSfaGI 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 99 YRQKNFSNELDNFSLNDNLHKNTL-----FIVDEASMISNDglsgasfgsgrlLDDLIEYV----YSGH----GCRLLII 165
Cdd:cd18037 68 GLGSEPAEDLLERVKRSPYLVQRWrkcdvLIIDEISMLDAD------------LFDKLDRVarevRGSDkpfgGIQLILC 135
|
170
....*....|.
gi 2181615081 166 GDEAQLPPVGE 176
Cdd:cd18037 136 GDFLQLPPVTK 146
|
|
| DEXXQc_Upf1-like |
cd17934 |
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, ... |
41-194 |
4.16e-08 |
|
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: 51.47 E-value: 4.16e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 41 LLLLKGYAGTGKTTLVGAVVRTLSEFHAGY-VLmastgraakvfsrysgFSAYTiHKKIyrqknfsneldnfslnDNLHk 119
Cdd:cd17934 1 ISLIQGPPGTGKTTTIAAIVLQLLKGLRGKrVL----------------VTAQS-NVAV----------------DNVD- 46
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2181615081 120 nTLfIVDEASMISNDGLSGASFGSGRLLddlieyvysghgcrllIIGDEAQLPPVGEEESPALSAEILGGYGLDV 194
Cdd:cd17934 47 -VV-IIDEASQITEPELLIALIRAKKVV----------------LVGDPKQLPPVVQEDHAALLGLSFILSLLLL 103
|
|
| PRK13826 |
PRK13826 |
Dtr system oriT relaxase; Provisional |
19-174 |
5.41e-08 |
|
Dtr system oriT relaxase; Provisional
Pssm-ID: 237524 [Multi-domain] Cd Length: 1102 Bit Score: 55.56 E-value: 5.41e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 19 TDEQEKAMECIAdflfKPENDSLLLlkGYAGTGKTTLVGAVvRTLSEFhAGY--VLMASTGRAAKVFSRYSGFSAYTIHK 96
Cdd:PRK13826 383 SDEQKTAIEHVA----GPARIAAVV--GRAGAGKTTMMKAA-REAWEA-AGYrvVGGALAGKAAEGLEKEAGIQSRTLSS 454
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2181615081 97 KIYRQKNFSNELDNfslndnlhkNTLFIVDEASMISNDGLSGasfgsgrllddLIEYVySGHGCRLLIIGDEAQLPPV 174
Cdd:PRK13826 455 WELRWNQGRDQLDN---------KTVFVLDEAGMVASRQMAL-----------FVEAV-TRAGAKLVLVGDPEQLQPI 511
|
|
| PRK13709 |
PRK13709 |
conjugal transfer nickase/helicase TraI; Provisional |
19-174 |
4.04e-07 |
|
conjugal transfer nickase/helicase TraI; Provisional
Pssm-ID: 237478 [Multi-domain] Cd Length: 1747 Bit Score: 52.87 E-value: 4.04e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 19 TDEQEKAMECIADflfkpENDSLLLLKGYAGTGKTTLVGAVVRTLSEFHAG----YVLMASTGRAAKVFsRYSGFSAYTI 94
Cdd:PRK13709 969 TSGQRAATRMILE-----STDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESerprVVGLGPTHRAVGEM-RSAGVDAQTL 1042
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 95 HKKIY--RQKNFSNELDNFSlndnlhkNTLFIVDEASMISNDGLSGASfgsgrlldDLIeyvySGHGCRLLIIGDEAQLP 172
Cdd:PRK13709 1043 ASFLHdtQLQQRSGETPDFS-------NTLFLLDESSMVGNTDMARAY--------ALI----AAGGGRAVSSGDTDQLQ 1103
|
..
gi 2181615081 173 PV 174
Cdd:PRK13709 1104 AI 1105
|
|
| PRK14712 |
PRK14712 |
conjugal transfer nickase/helicase TraI; Provisional |
6-425 |
6.46e-06 |
|
conjugal transfer nickase/helicase TraI; Provisional
Pssm-ID: 237796 [Multi-domain] Cd Length: 1623 Bit Score: 49.09 E-value: 6.46e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 6 LTQQIKRNFCYKPTDEQEKAMECIADflfkpENDSLLLLKGYAGTGKTTLVGAV---VRTLSEFHAGYVL-MASTGRAAK 81
Cdd:PRK14712 824 LMERVPGELMEKLTSGQRAATRMILE-----TSDRFTVVQGYAGVGKTTQFRAVmsaVNMLPESERPRVVgLGPTHRAVG 898
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 82 VFsRYSGFSAYTI----HKKIYRQKnfSNELDNFSlndnlhkNTLFIVDEASMISNDGLSGA----SFGSGRLL----DD 149
Cdd:PRK14712 899 EM-RSAGVDAQTLasflHDTQLQQR--SGETPDFS-------NTLFLLDESSMVGNTDMARAyaliAAGGGRAVasgdTD 968
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 150 LIEYVYSGHGCRLLIIGDEAQLPPVGE--EESPALSAEILGGYGLDVTECLL-------TEVIRYSGRNGILSNATMLRE 220
Cdd:PRK14712 969 QLQAIAPGQPFRLQQTRSAADVVIMKEivRQTPELREAVYSLINRDVERALSglervkpSQVPRLEGAWAPEHSVTEFSH 1048
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 221 RMAADDIYDLPKLSLKGYGdISSVPGSeLIEAINTSY---NEAGMDETMIICRSNKRAYLYNKGIR-------------- 283
Cdd:PRK14712 1049 SQEAKLAEAQQKAMLKGEA-FPDVPMT-LYEAIVRDYtgrTPEAREQTLIVTHLNEDRRVLNSMIHdarekagelgqvqv 1126
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 284 -----NTILYREDEL-------NTGDILMIAKNNYHWTADCKEMDFI-----ANGDIAVVRRVRRTSEmygfrfaDVVLS 346
Cdd:PRK14712 1127 mvpvlNTANIRDGELrrlstweNNPDALALVDNVYHRIAGISKDDGLitlqdAEGNTRLISPREAVAE-------GVTLY 1199
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 347 FPDhndielelKILLDTlhSDYPSLSKEDSDRLF--------NAVMEDYSDITNKrERMKKLKEDSFYNALQVKYAYAVT 418
Cdd:PRK14712 1200 TPD--------TIRVGT--GDRIRFTKSDRERGYvansvwtvTAVSGDSVTLSDG-QQTRVIRPGQERAEQHIDLAYAIT 1268
|
....*..
gi 2181615081 419 CHKAQGG 425
Cdd:PRK14712 1269 AHGAQGA 1275
|
|
| TraI_TIGR |
TIGR02760 |
conjugative transfer relaxase protein TraI; This protein is a component of the relaxosome ... |
39-171 |
2.98e-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: 46.82 E-value: 2.98e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 39 DSLLLLKGYAGTGKTTLVGAVVRTLSE-FHAG---YVLMASTGRAAKVFsRYSGFSAYTIhkkiyrqknfSNELDNFSLN 114
Cdd:TIGR02760 1036 DRFVAVQGLAGVGKTTMLESRYKPVLQaFESEqlqVIGLAPTHEAVGEL-KSAGVQAQTL----------DSFLTDISLY 1104
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 115 DN---LHKNTLFIVDEASMISNdglsgasfgsgRLLDDLIEYVYSGhGCRLLIIGDEAQL 171
Cdd:TIGR02760 1105 RNsggDFRNTLFILDESSMVSN-----------FQLTHATELVQKS-GSRAVSLGDIAQL 1152
|
|
| TraI_TIGR |
TIGR02760 |
conjugative transfer relaxase protein TraI; This protein is a component of the relaxosome ... |
38-172 |
3.99e-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: 46.44 E-value: 3.99e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 38 NDSLLLLKGYAGTGKTTLVgAVVRTLSEFHAGYVLMASTGRAAKVFSRYSG----FSAYTIHKKIYRQKNFSNELDNFSL 113
Cdd:TIGR02760 445 TKRFIIINGFGGTGSTEIA-QLLLHLASEQGYEIQIITAGSLSAQELRQKIprlaSTFITWVKNLFNDDQDHTVQGLLDK 523
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*....
gi 2181615081 114 NDNLHKNTLFIVDEASMISNDGLSGASFGSGRllddlieyvysgHGCRLLIIGDEAQLP 172
Cdd:TIGR02760 524 SSPFSNKDIFVVDEANKLSNNELLKLIDKAEQ------------HNSKLILLNDSAQRQ 570
|
|
| DNA2 |
COG1112 |
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]; |
124-225 |
5.47e-04 |
|
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: 5.47e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2181615081 124 IVDEASMISNDGLSGAsFGSGRllddlieyvysghgcRLLIIGDEAQLPPVgeeeSPALSAEILGGYGLDVTecLLTEVI 203
Cdd:COG1112 560 IIDEASQATLAEALGA-LARAK---------------RVVLVGDPKQLPPV----VFGEEAEEVAEEGLDES--LLDRLL 617
|
90 100
....*....|....*....|....
gi 2181615081 204 RYSGRNGIlsnatMLRE--RMAAD 225
Cdd:COG1112 618 ARLPERGV-----MLREhyRMHPE 636
|
|
| PRK14490 |
PRK14490 |
putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; ... |
46-70 |
2.47e-03 |
|
putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional
Pssm-ID: 237728 [Multi-domain] Cd Length: 369 Bit Score: 40.03 E-value: 2.47e-03
10 20
....*....|....*....|....*.
gi 2181615081 46 GYAGTGKTTLVGAVVRTLSE-FHAGY 70
Cdd:PRK14490 12 GYSGSGKTTLITALVRRLSErFSVGY 37
|
|
| |
