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Conserved domains on  [gi|1679863595|gb|TNC93634|]
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MAG: Conjugative relaxase domain protein, partial [Gallionellaceae bacterium]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK13709 super family cl36287
conjugal transfer nickase/helicase TraI; Provisional
 37-387 7.27e-31

conjugal transfer nickase/helicase TraI; Provisional


The actual alignment was detected with superfamily member PRK13709:

Pssm-ID: 237478 [Multi-domain]  Cd Length: 1747  Bit Score: 124.91  E-value: 7.27e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595   37 QASQANGEN---HKVLHVCDEASMSGQKEFNGVISATEQQGAKTVFLGDENQHQAVAAGKGFELAQKHMPMSELGQDSIR 113
Cdd:PRK13709  1050 QLQQRSGETpdfSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIAPGQPFRLMQTRSAADVAIMKEIV 1129

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  114 RQTtDHAKDAVSKILEGKHGEAVKGLDTKEIGTaqdVVREKYAA--------IESPTDKDKAAFRAELKDAAKADNKEVI 185
Cdd:PRK13709  1130 RQT-PELREAVYSLINRDVERALSGIESVKPSQ---VPRQEGAWapessvteFSHPQEAKLAEAQQKAMLAFPDVPMTLY 1205

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  186 GQLAKDYSSMDKGDRDKTLVITATNADRNAINNAVRNELKGKGELQDDKRMDT-LEKTGNTQEEMKRATTFE--KGQVVE 262
Cdd:PRK13709  1206 EAIVRDYTGRTPEAREQTLIITHLNEDRRVLNSMIHDAREKAGELGKEQVTVPvLDTANIRDGELRRLSTWEahRGALAL 1285

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  263 ftsksktldldKGDR-ATVTNTDSRTNIVTAQTESGREIKFDPAKV--QGKELYDVAKgKEFAVGDKIAVTKNDKDFDVK 339
Cdd:PRK13709  1286 -----------VDNVyHRIAGIDKDDGLITLRDAEGNTRLISPREAvaEGVTLYTPDT-IRVGTGDRMRFTKSDRERGYV 1353

                          330       340       350       360       370
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1679863595  340 NGQTGSIEKIEGNKITAKMESGEkREFDTDKFK---HIDHAYAVTSYKSQG 387
Cdd:PRK13709  1354 ANSVWTVTAVSGDSVTLSDGQQT-RVIRPGQERaeqHIDLAYAITAHGAQG 1403
 
Name Accession Description Interval E-value
PRK13709 PRK13709
conjugal transfer nickase/helicase TraI; Provisional
 37-387 7.27e-31

conjugal transfer nickase/helicase TraI; Provisional


Pssm-ID: 237478 [Multi-domain]  Cd Length: 1747  Bit Score: 124.91  E-value: 7.27e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595   37 QASQANGEN---HKVLHVCDEASMSGQKEFNGVISATEQQGAKTVFLGDENQHQAVAAGKGFELAQKHMPMSELGQDSIR 113
Cdd:PRK13709  1050 QLQQRSGETpdfSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIAPGQPFRLMQTRSAADVAIMKEIV 1129

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  114 RQTtDHAKDAVSKILEGKHGEAVKGLDTKEIGTaqdVVREKYAA--------IESPTDKDKAAFRAELKDAAKADNKEVI 185
Cdd:PRK13709  1130 RQT-PELREAVYSLINRDVERALSGIESVKPSQ---VPRQEGAWapessvteFSHPQEAKLAEAQQKAMLAFPDVPMTLY 1205

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  186 GQLAKDYSSMDKGDRDKTLVITATNADRNAINNAVRNELKGKGELQDDKRMDT-LEKTGNTQEEMKRATTFE--KGQVVE 262
Cdd:PRK13709  1206 EAIVRDYTGRTPEAREQTLIITHLNEDRRVLNSMIHDAREKAGELGKEQVTVPvLDTANIRDGELRRLSTWEahRGALAL 1285

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  263 ftsksktldldKGDR-ATVTNTDSRTNIVTAQTESGREIKFDPAKV--QGKELYDVAKgKEFAVGDKIAVTKNDKDFDVK 339
Cdd:PRK13709  1286 -----------VDNVyHRIAGIDKDDGLITLRDAEGNTRLISPREAvaEGVTLYTPDT-IRVGTGDRMRFTKSDRERGYV 1353

                          330       340       350       360       370
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1679863595  340 NGQTGSIEKIEGNKITAKMESGEkREFDTDKFK---HIDHAYAVTSYKSQG 387
Cdd:PRK13709  1354 ANSVWTVTAVSGDSVTLSDGQQT-RVIRPGQERaeqHIDLAYAITAHGAQG 1403
RecD COG0507
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ...
 53-389 1.35e-30

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: 122.39  E-value: 1.35e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  53 DEASMSGQKEFNGVISATEQQGAKTVFLGDENQHQAVAAGKGFELAQKH--MPMSELgqDSIRRQTTDhakdavSKILEG 130
Cdd:COG0507   225 DEASMVDTRLMAALLEALPRAGARLILVGDPDQLPSVGAGAVLRDLIESgtVPVVEL--TEVYRQADD------SRIIEL 296

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595 131 KHgeAVKgldtkeIGTAQDVVREKYAAIESPTDKDKAafraelkdaakadnkEVIGQLAKDYSSMDKGDRDkTLVITATN 210
Cdd:COG0507   297 AH--AIR------EGDAPEALNARYADVVFVEAEDAE---------------EAAEAIVELYADRPAGGED-IQVLAPTN 352

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595 211 ADRNAINNAVRNELKGKGELqddkrmdtlektgntqeemkrattfekgqvveftsksktldldkgdratvtntdsrtniv 290
Cdd:COG0507   353 AGVDALNQAIREALNPAGEL------------------------------------------------------------ 372

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595 291 taqtesgreikfdpakvqgKELYDVAKGKEFAVGDKIAVTKNDKDFDVKNGQTGSIEKIEGN--KITAKMESGEKREFDT 368
Cdd:COG0507   373 -------------------ERELAEDGELELYVGDRVMFTRNDYDLGVFNGDIGTVLSIDEDegRLTVRFDGREIVTYDP 433

                         330       340
                  ....*....|....*....|.
gi 1679863595 369 DKFKHIDHAYAVTSYKSQGQT 389
Cdd:COG0507   434 SELDQLELAYAITVHKSQGST 454
TraA_Ti TIGR02768
Ti-type conjugative transfer relaxase TraA; This protein contains domains distinctive of a ...
 51-390 6.26e-28

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: 115.67  E-value: 6.26e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  51 VCDEASMSGQKEFNGVISATEQQGAKTVFLGDENQHQAVAAGKGFELAQKHMPMSELgqDSIRRQTTDHAKDAVSKILEG 130
Cdd:TIGR02768 444 VIDEAGMVGSRQMARVLKEAEEAGAKVVLVGDPEQLQPIEAGAAFRAIAERIGYAEL--ETIRRQREAWARQASLELARG 521

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595 131 KHGEAVkgldtkeigtaqdvvrEKYAaiesptdkDKAAFR-AELKDAAkadnkevIGQLAKDY-SSMDKGDRDKTLVITA 208
Cdd:TIGR02768 522 DVEKAL----------------AAYR--------DHGHITiHDTREEA-------IEQVVADWkQDLREANPAGSQIMLA 570

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595 209 -TNADRNAINNAVRNELKGKGELQDDkrmdtlektgntqeemkrattfekgqvveftsksktldldkgdratvtntdsrt 287
Cdd:TIGR02768 571 hTRKDVRALNEAAREALIERGELGES------------------------------------------------------ 596

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595 288 niVTAQTESGreikfdpakvqgkelydvakGKEFAVGDKIAVTKNDKDFDVKNGQTGSIEKIEGNKITAKMESGEKREFD 367
Cdd:TIGR02768 597 --ILFQTARG--------------------ERKFAAGDRIVFLENNRDLGVKNGMLGTVEEIEDGRLVVQLDSGELVIIP 654

                         330       340
                  ....*....|....*....|...
gi 1679863595 368 TDKFKHIDHAYAVTSYKSQGQTI 390
Cdd:TIGR02768 655 QAEYDALDHGYATTIHKSQGVTV 677
AAA_30 pfam13604
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 32-140 2.64e-14

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: 70.67  E-value: 2.64e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  32 STLKVQASQANGENHKVLhVCDEASMSGQKEFNGVISATEQQGAKTVFLGDENQHQAVAAGKGFE-LAQKHMPMSELgqD 110
Cdd:pfam13604  75 KLLHRLGGRAGLDPGTLL-IVDEAGMVGTRQMARLLKLAEDAGARVILVGDPRQLPSVEAGGAFRdLLAAGIGTAEL--T 151

                          90       100       110
                  ....*....|....*....|....*....|
gi 1679863595 111 SIRRQTTDHAKDAVSKILEGKHGEAVKGLD 140
Cdd:pfam13604 152 EIVRQRDPWQRAASLALRDGDPAEALDALA 181
DEXSc_RecD-like cd17933
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ...
 45-107 6.81e-07

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: 48.70  E-value: 6.81e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1679863595  45 NHKVLhVCDEASMSGQKEFNGVISATEqQGAKTVFLGDENQHQAVAAGKGFE--LAQKHMPMSEL 107
Cdd:cd17933    89 DADLL-IVDEASMVDTRLMAALLSAIP-AGARLILVGDPDQLPSVGAGNVLRdlIASKGVPTVEL 151
 
Name Accession Description Interval E-value
PRK13709 PRK13709
conjugal transfer nickase/helicase TraI; Provisional
 37-387 7.27e-31

conjugal transfer nickase/helicase TraI; Provisional


Pssm-ID: 237478 [Multi-domain]  Cd Length: 1747  Bit Score: 124.91  E-value: 7.27e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595   37 QASQANGEN---HKVLHVCDEASMSGQKEFNGVISATEQQGAKTVFLGDENQHQAVAAGKGFELAQKHMPMSELGQDSIR 113
Cdd:PRK13709  1050 QLQQRSGETpdfSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIAPGQPFRLMQTRSAADVAIMKEIV 1129

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  114 RQTtDHAKDAVSKILEGKHGEAVKGLDTKEIGTaqdVVREKYAA--------IESPTDKDKAAFRAELKDAAKADNKEVI 185
Cdd:PRK13709  1130 RQT-PELREAVYSLINRDVERALSGIESVKPSQ---VPRQEGAWapessvteFSHPQEAKLAEAQQKAMLAFPDVPMTLY 1205

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  186 GQLAKDYSSMDKGDRDKTLVITATNADRNAINNAVRNELKGKGELQDDKRMDT-LEKTGNTQEEMKRATTFE--KGQVVE 262
Cdd:PRK13709  1206 EAIVRDYTGRTPEAREQTLIITHLNEDRRVLNSMIHDAREKAGELGKEQVTVPvLDTANIRDGELRRLSTWEahRGALAL 1285

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  263 ftsksktldldKGDR-ATVTNTDSRTNIVTAQTESGREIKFDPAKV--QGKELYDVAKgKEFAVGDKIAVTKNDKDFDVK 339
Cdd:PRK13709  1286 -----------VDNVyHRIAGIDKDDGLITLRDAEGNTRLISPREAvaEGVTLYTPDT-IRVGTGDRMRFTKSDRERGYV 1353

                          330       340       350       360       370
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1679863595  340 NGQTGSIEKIEGNKITAKMESGEkREFDTDKFK---HIDHAYAVTSYKSQG 387
Cdd:PRK13709  1354 ANSVWTVTAVSGDSVTLSDGQQT-RVIRPGQERaeqHIDLAYAITAHGAQG 1403
RecD COG0507
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ...
 53-389 1.35e-30

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: 122.39  E-value: 1.35e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  53 DEASMSGQKEFNGVISATEQQGAKTVFLGDENQHQAVAAGKGFELAQKH--MPMSELgqDSIRRQTTDhakdavSKILEG 130
Cdd:COG0507   225 DEASMVDTRLMAALLEALPRAGARLILVGDPDQLPSVGAGAVLRDLIESgtVPVVEL--TEVYRQADD------SRIIEL 296

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595 131 KHgeAVKgldtkeIGTAQDVVREKYAAIESPTDKDKAafraelkdaakadnkEVIGQLAKDYSSMDKGDRDkTLVITATN 210
Cdd:COG0507   297 AH--AIR------EGDAPEALNARYADVVFVEAEDAE---------------EAAEAIVELYADRPAGGED-IQVLAPTN 352

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595 211 ADRNAINNAVRNELKGKGELqddkrmdtlektgntqeemkrattfekgqvveftsksktldldkgdratvtntdsrtniv 290
Cdd:COG0507   353 AGVDALNQAIREALNPAGEL------------------------------------------------------------ 372

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595 291 taqtesgreikfdpakvqgKELYDVAKGKEFAVGDKIAVTKNDKDFDVKNGQTGSIEKIEGN--KITAKMESGEKREFDT 368
Cdd:COG0507   373 -------------------ERELAEDGELELYVGDRVMFTRNDYDLGVFNGDIGTVLSIDEDegRLTVRFDGREIVTYDP 433

                         330       340
                  ....*....|....*....|.
gi 1679863595 369 DKFKHIDHAYAVTSYKSQGQT 389
Cdd:COG0507   434 SELDQLELAYAITVHKSQGST 454
TraA_Ti TIGR02768
Ti-type conjugative transfer relaxase TraA; This protein contains domains distinctive of a ...
 51-390 6.26e-28

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: 115.67  E-value: 6.26e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  51 VCDEASMSGQKEFNGVISATEQQGAKTVFLGDENQHQAVAAGKGFELAQKHMPMSELgqDSIRRQTTDHAKDAVSKILEG 130
Cdd:TIGR02768 444 VIDEAGMVGSRQMARVLKEAEEAGAKVVLVGDPEQLQPIEAGAAFRAIAERIGYAEL--ETIRRQREAWARQASLELARG 521

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595 131 KHGEAVkgldtkeigtaqdvvrEKYAaiesptdkDKAAFR-AELKDAAkadnkevIGQLAKDY-SSMDKGDRDKTLVITA 208
Cdd:TIGR02768 522 DVEKAL----------------AAYR--------DHGHITiHDTREEA-------IEQVVADWkQDLREANPAGSQIMLA 570

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595 209 -TNADRNAINNAVRNELKGKGELQDDkrmdtlektgntqeemkrattfekgqvveftsksktldldkgdratvtntdsrt 287
Cdd:TIGR02768 571 hTRKDVRALNEAAREALIERGELGES------------------------------------------------------ 596

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595 288 niVTAQTESGreikfdpakvqgkelydvakGKEFAVGDKIAVTKNDKDFDVKNGQTGSIEKIEGNKITAKMESGEKREFD 367
Cdd:TIGR02768 597 --ILFQTARG--------------------ERKFAAGDRIVFLENNRDLGVKNGMLGTVEEIEDGRLVVQLDSGELVIIP 654

                         330       340
                  ....*....|....*....|...
gi 1679863595 368 TDKFKHIDHAYAVTSYKSQGQTI 390
Cdd:TIGR02768 655 QAEYDALDHGYATTIHKSQGVTV 677
TraI_TIGR TIGR02760
conjugative transfer relaxase protein TraI; This protein is a component of the relaxosome ...
 33-389 1.34e-25

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: 109.22  E-value: 1.34e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595   33 TLKVQASQANGENHkvLHVCDEASMSGQKEFNGVISATEQQGAKTVFLGDENQHQAVAAGKGFELAQKHMPM-SELGQDS 111
Cdd:TIGR02760 1101 ISLYRNSGGDFRNT--LFILDESSMVSNFQLTHATELVQKSGSRAVSLGDIAQLQSLAAGKPFELAITFDIIdTAIMKEI 1178

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  112 IRRQTTDHAKDAVSKILEGKHGEAVKGLdtKEIGTAQDVVREKYAAIESPTDKD--------KAAFRAELKDAAKADNKE 183
Cdd:TIGR02760 1179 VRQNNSAELKAAHNSLDKRSNPKALELL--KNQNPLQHELMQNAAMPEIASDEQglqkhdlaKLAVNTEKPKKAQPDATV 1256

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  184 VIGQ-LAKDYSSMDKGDRDKTLVITATNADRNAINNAVRNELKGKGELQDDKRMDTLEKTGN-TQEEMKRATTFEKGQVv 261
Cdd:TIGR02760 1257 TLYReIVKDYLSRTPEFRENTLIIAHTNNDRTGIYPFIREGLIKQKELSKQQVTVPRLRSVNiSSPELKTMMPFEKGAV- 1335

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  262 eftsksktLDLDKGDRATVTNTDSRTNIVT-AQTESGREIKFDP--AKVQGKELYDVAKgKEFAVGDKIAVTKNDKDFDV 338
Cdd:TIGR02760 1336 --------LRLKKDAYLTIADIDREHGKLTvADIKTGSERDILPrqLDHTFTSLYSDSE-LPLAKGDKIRLRATDKNRGI 1406

                          330       340       350       360       370
                   ....*....|....*....|....*....|....*....|....*....|...
gi 1679863595  339 KNGQTGSIEKIEGNKITAKMESGEKREFDT--DKFKHIDHAYAVTSYKSQGQT 389
Cdd:TIGR02760 1407 KANEVYTVTQVVNGLSVQLSKVKNSLSLKPiqAKDKHWDYAYTRTADSAQGAT 1459
PRK13889 PRK13889
conjugal transfer relaxase TraA; Provisional
 51-390 2.50e-23

conjugal transfer relaxase TraA; Provisional


Pssm-ID: 237546 [Multi-domain]  Cd Length: 988  Bit Score: 102.08  E-value: 2.50e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  51 VCDEASMSGQKEFNGVISATEQQGAKTVFLGDENQHQAVAAGKGFE-LAQKHmPMSELGQdsIRRQTTDHAKDAVSKILE 129
Cdd:PRK13889  438 VIDEAGMVGTRQLERVLSHAADAGAKVVLVGDPQQLQAIEAGAAFRsIHERH-GGAEIGE--VRRQREDWQRDATRDLAT 514

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595 130 GKHGEAVKGLDtkeigtAQDVVRekyaaiESPTdKDKAafRAELKDAAKADNkevigQLAKDYSSMdkgdrdktlVITAT 209
Cdd:PRK13889  515 GRTGEALDAYE------AHGMVH------AAAT-REQA--RADLIDRWDRDR-----QAAPDRSRI---------ILTHT 565

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595 210 NADRNAINNAVRNELKGKGELQDDKRMDTlektgntqeemkrattfekgqvveftsksktldlDKGDRAtvtntdsrtni 289
Cdd:PRK13889  566 NDEVRALNEAARERMRAAGDLGDDVRVTV----------------------------------ERGERS----------- 600

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595 290 vtaqtesgreikfdpakvqgkelydvakgkeFAVGDKIAVTKNDKDFDVKNGQTGSIEKIEGNKITAKMESGEKREFDTD 369
Cdd:PRK13889  601 -------------------------------FASGDRVMFLQNERGLGVKNGTLGTIEQVSAQSMSVRLDDGRSVAFDLK 649

                         330       340
                  ....*....|....*....|.
gi 1679863595 370 KFKHIDHAYAVTSYKSQGQTI 390
Cdd:PRK13889  650 DYDRIDHGYAATIHKAQGMTV 670
TraI_TIGR TIGR02760
conjugative transfer relaxase protein TraI; This protein is a component of the relaxosome ...
 47-389 3.58e-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: 86.88  E-value: 3.58e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595   47 KVLHVCDEASMSGQKEFNGVISATEQQGAKTVFLGDENQHQAVAAGKGFELaqkhmpMSELGQDSIRRQTTDHAKDAVsk 126
Cdd:TIGR02760  530 KDIFVVDEANKLSNNELLKLIDKAEQHNSKLILLNDSAQRQGMSAGSAIDL------LKEGGVTTYAWVDTKQQKASV-- 601

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  127 ilegkhgeavkgldtkEIGTAQDVVREKYaaiesptdkdkaafraelkdaakadnkevigqLAKDYSSMDKgDRDKTLVI 206
Cdd:TIGR02760  602 ----------------EISEAVDKLRVDY--------------------------------IASAWLDLTP-DRQNSQVL 632

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  207 TATNADRNAINNAVRNELKGKGEL-QDDKRMDTLEKTGNTQEEMKRATTFEKGQVVEFTSKSKTldldKGDRATVTNTDS 285
Cdd:TIGR02760  633 ATTHREQQDLTQIIRNALKQEGQLsRQEVTVPTLKPVNLTGIQRRNAAHYKQGMVIRFWQKGKI----PHDDYVVTNVNK 708

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  286 RTNIVTAQTESGREIKFDP-AKVQGKELYDVAKGK--EFAVGDKIAVTKNDKDFDVKNGQTGSIEKIEGNKITAKMESGE 362
Cdd:TIGR02760  709 HNNTLTLKDAQGKTQKFKPsSLKDLERPFSVYRPEqlEVAAGERLQVTGNHFHSRVRNGELLTVSSINNEGITLITEDGQ 788

                          330       340
                   ....*....|....*....|....*....
gi 1679863595  363 KREFDTDKFK--HIDHAYAVTSYKSQGQT 389
Cdd:TIGR02760  789 TLHLPHGALEdaHLDYGYVLTPYHTQPDD 817
PRK14712 PRK14712
conjugal transfer nickase/helicase TraI; Provisional
 37-389 2.54e-15

conjugal transfer nickase/helicase TraI; Provisional


Pssm-ID: 237796 [Multi-domain]  Cd Length: 1623  Bit Score: 77.98  E-value: 2.54e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595   37 QASQANGEN---HKVLHVCDEASMSGQKEFNGVISATEQQGAKTVFLGDENQHQAVAAGKGFELAQKHMPMSELGQDSIR 113
Cdd:PRK14712   918 QLQQRSGETpdfSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSAADVVIMKEIV 997

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  114 RQTTDhAKDAVSKILEGKHGEAVKGLD---TKEIGTAQDVVREKYAAIESPTDKD----KAAFRAELKDAAKADNKEVIG 186
Cdd:PRK14712   998 RQTPE-LREAVYSLINRDVERALSGLErvkPSQVPRLEGAWAPEHSVTEFSHSQEaklaEAQQKAMLKGEAFPDVPMTLY 1076

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  187 Q-LAKDYSSMDKGDRDKTLVITATNADRNAINNAVRNELKGKGELQDDKRMDTLEKTGNTQE-EMKRATTFEkgqvveft 264
Cdd:PRK14712  1077 EaIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGQVQVMVPVLNTANIRDgELRRLSTWE-------- 1148

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  265 SKSKTLDLDKGDRATVTNTDSRTNIVTAQTESGREIKFDP--AKVQGKELYdVAKGKEFAVGDKIAVTKNDKDFDVKNGQ 342
Cdd:PRK14712  1149 NNPDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPreAVAEGVTLY-TPDTIRVGTGDRIRFTKSDRERGYVANS 1227

                          330       340       350       360       370
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1679863595  343 TGSIEKIEGNKITakMESGEK----REFDTDKFKHIDHAYAVTSYKSQGQT 389
Cdd:PRK14712  1228 VWTVTAVSGDSVT--LSDGQQtrviRPGQERAEQHIDLAYAITAHGAQGAS 1276
AAA_30 pfam13604
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 32-140 2.64e-14

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: 70.67  E-value: 2.64e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  32 STLKVQASQANGENHKVLhVCDEASMSGQKEFNGVISATEQQGAKTVFLGDENQHQAVAAGKGFE-LAQKHMPMSELgqD 110
Cdd:pfam13604  75 KLLHRLGGRAGLDPGTLL-IVDEAGMVGTRQMARLLKLAEDAGARVILVGDPRQLPSVEAGGAFRdLLAAGIGTAEL--T 151

                          90       100       110
                  ....*....|....*....|....*....|
gi 1679863595 111 SIRRQTTDHAKDAVSKILEGKHGEAVKGLD 140
Cdd:pfam13604 152 EIVRQRDPWQRAASLALRDGDPAEALDALA 181
PRK13826 PRK13826
Dtr system oriT relaxase; Provisional
 45-390 1.62e-11

Dtr system oriT relaxase; Provisional


Pssm-ID: 237524 [Multi-domain]  Cd Length: 1102  Bit Score: 65.96  E-value: 1.62e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595   45 NHKVLHVCDEASMSGQKEFNGVISATEQQGAKTVFLGDENQHQAVAAGKGFELAQKHMPMSELgqDSIRRQTTDHAKDAV 124
Cdd:PRK13826   467 DNKTVFVLDEAGMVASRQMALFVEAVTRAGAKLVLVGDPEQLQPIEAGAAFRAIADRIGYAEL--ETIYRQREQWMRDAS 544

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  125 SKILEGKHGEAVkgldtkeigtaqdvvrekyaaiesptdkdkAAFRA-------ELKDAAKadnKEVIGQLAKDYssmdk 197
Cdd:PRK13826   545 LDLARGNVGKAL------------------------------DAYRAngrvigsRLKAEAV---ESLIADWNRDY----- 586

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  198 gDRDKTLVITAtnadrnainnavrnelkgkgELQDDKRMdtlektgntQEEMKRATTFEKGqVVEFTSKSKTLDldkGDR 277
Cdd:PRK13826   587 -DPTKTTLILA--------------------HLRRDVRM---------LNEMARAKLVERG-IVGEGHAFRTAD---GER 632

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1679863595  278 atvtntdsrtnivtaqtesgreikfdpakvqgkelydvakgkEFAVGDKIAVTKNDKDFDVKNGQTGSIEKIEGNKITAK 357
Cdd:PRK13826   633 ------------------------------------------RFAAGDQIVFLKNEGSLGVKNGMIGKVVEAAPNRIVAE 670

                          330       340       350
                   ....*....|....*....|....*....|....*.
gi 1679863595  358 MESGEKR---EFDTDKFKHIDHAYAVTSYKSQGQTI 390
Cdd:PRK13826   671 IGEGEHRrqvTVEQRFYNNLDHGYATTIHKSQGATV 706
DEXSc_RecD-like cd17933
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ...
 45-107 6.81e-07

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: 48.70  E-value: 6.81e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1679863595  45 NHKVLhVCDEASMSGQKEFNGVISATEqQGAKTVFLGDENQHQAVAAGKGFE--LAQKHMPMSEL 107
Cdd:cd17933    89 DADLL-IVDEASMVDTRLMAALLSAIP-AGARLILVGDPDQLPSVGAGNVLRdlIASKGVPTVEL 151
SH3_13 pfam18335
ATP-dependent RecD-like DNA helicase SH3 domain; This is an SH3 (SRC homology domain 3) domain ...
 318-350 2.13e-03

ATP-dependent RecD-like DNA helicase SH3 domain; This is an SH3 (SRC homology domain 3) domain found in RecD helicases (EC 3.6.4.12) that belong to the bacterial Superfamily 1B (SF1B). This superfamily of helicases translocate in a 5'-3' direction and are required for a range of cellular activities across all domains of life. Structural analysis indicate that the extension of the 5'-tail of the unwound DNA duplex induces a large conformational change in the RecD subunit, that is transferred through the RecC subunit to activate the nuclease domain of the RecB subunit. The process involves this SH3 domain that binds to a region of the RecB subunit. Studies of RecD in E. coli also revealed that the SH3 domain interacts with the ssDNA tail in a location different to that normally occupied by a peptide in canonical eukaryotic SH3 domains, thus retaining the potential to bind peptide at the same time as the ssDNA tail.


Pssm-ID: 465715 [Multi-domain]  Cd Length: 65  Bit Score: 36.30  E-value: 2.13e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1679863595 318 GKEFAVGDKIAVTKNDKDFDVKNGQTGSIEKIE 350
Cdd:pfam18335  23 GRIFRVGDKVMQTKNNYDLGVFNGDIGIIVAID 55
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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