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Conserved domains on  [gi|1472653178|gb|RHU06176|]
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recombinase [Lachnospiraceae bacterium AM26-1LB]

Protein Classification

plasmid recombination protein( domain architecture ID 15322803)

plasmid recombination protein belongs to the plasmid mobilization pre family

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
MobM_relaxase cd17242
relaxase domain of MobM and similar proteins; With some plasmids, recombination can occur in a ...
4-218 4.40e-26

relaxase domain of MobM and similar proteins; With some plasmids, recombination can occur in a site-specific manner that is independent of RecA. In such cases, the recombination event requires another protein called Pre (plasmid recombination enzyme), also known as Mob (conjugative mobilization). The best characterized member of this family is encoded by the streptococcal plasmid pMV158 that recognizes the plasmid origin of transfer. MobM converts supercoiled plasmid DNA into relaxed DNA by cleaving a phosphodiester bond of a specific dinucleotide and remains bound to the 5'-end of the nick site.


:

Pssm-ID: 410988  Cd Length: 196  Bit Score: 103.50  E-value: 4.40e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178   4 KGSVNHNSRKFRAE--NVDGTRTHLNIDYCNENIKTvYHELFDEAL-ERYNAKQIRSDRKIkdYYEKIRSSKQEKpfhei 80
Cdd:cd17242    13 GGALRHNERERETEnpNIDPSRTHLNYELVGPGKKD-YAEAIKERLeELGKKKKIRKDAVL--AVEFILTASPEF----- 84
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178  81 ilqvggkgnmnADTENGELAKQILDEYYQGFQERNPQLRVFSAHLHMDEATPHLHIDFVPFTTgskrglDTRVSLKQALA 160
Cdd:cd17242    85 -----------FEGLDPEEIEEFFKDALEFLKERFGEENIVSAVVHLDETTPHLHAVVVPITE------DGRLSAKELFG 147
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1472653178 161 TQgfkggsrgdTEWSQWiQSEkeqLAAVM-ERYGIEWEHLGTHEKHLSVLDYKKQEREK 218
Cdd:cd17242   148 GR---------KKLREL-QDD---YAEAVaKKGGLERGIKGSKAKHKTKEKELKAKHEE 193
CCDC158 super family cl37899
Coiled-coil domain-containing protein 158; CCDC158 is a family of proteins found in eukaryotes. ...
156-368 1.20e-03

Coiled-coil domain-containing protein 158; CCDC158 is a family of proteins found in eukaryotes. The function is not known.


The actual alignment was detected with superfamily member pfam15921:

Pssm-ID: 464943 [Multi-domain]  Cd Length: 1112  Bit Score: 41.26  E-value: 1.20e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178  156 KQALATQGFKGGSRGDTEWSQWIQSEKEQLAAVMERYGIEWEHLGTHEKHLSVLDYKKQEREKEVAALGAKIEQKQIEFD 235
Cdd:pfam15921  448 RQMAAIQGKNESLEKVSSLTAQLESTKEMLRKVVEELTAKKMTLESSERTVSDLTASLQEKERAIEATNAEITKLRSRVD 527
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178  236 VLSERVLNYDKAKDELSNLEIELDtAPKYQLPEPEKFMtakayktKMAEPVVRKLKQLVKtvlarcfegwdnyHRLNTAN 315
Cdd:pfam15921  528 LKLQELQHLKNEGDHLRNVQTECE-ALKLQMAEKDKVI-------EILRQQIENMTQLVG-------------QHGRTAG 586
                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1472653178  316 AQLYRTNQRLEKVNERLTE--ENKILKaeNKDYSLLRKVFGRkqIDDL-LEQARTV 368
Cdd:pfam15921  587 AMQVEKAQLEKEINDRRLElqEFKILK--DKKDAKIRELEAR--VSDLeLEKVKLV 638
 
Name Accession Description Interval E-value
MobM_relaxase cd17242
relaxase domain of MobM and similar proteins; With some plasmids, recombination can occur in a ...
4-218 4.40e-26

relaxase domain of MobM and similar proteins; With some plasmids, recombination can occur in a site-specific manner that is independent of RecA. In such cases, the recombination event requires another protein called Pre (plasmid recombination enzyme), also known as Mob (conjugative mobilization). The best characterized member of this family is encoded by the streptococcal plasmid pMV158 that recognizes the plasmid origin of transfer. MobM converts supercoiled plasmid DNA into relaxed DNA by cleaving a phosphodiester bond of a specific dinucleotide and remains bound to the 5'-end of the nick site.


Pssm-ID: 410988  Cd Length: 196  Bit Score: 103.50  E-value: 4.40e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178   4 KGSVNHNSRKFRAE--NVDGTRTHLNIDYCNENIKTvYHELFDEAL-ERYNAKQIRSDRKIkdYYEKIRSSKQEKpfhei 80
Cdd:cd17242    13 GGALRHNERERETEnpNIDPSRTHLNYELVGPGKKD-YAEAIKERLeELGKKKKIRKDAVL--AVEFILTASPEF----- 84
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178  81 ilqvggkgnmnADTENGELAKQILDEYYQGFQERNPQLRVFSAHLHMDEATPHLHIDFVPFTTgskrglDTRVSLKQALA 160
Cdd:cd17242    85 -----------FEGLDPEEIEEFFKDALEFLKERFGEENIVSAVVHLDETTPHLHAVVVPITE------DGRLSAKELFG 147
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1472653178 161 TQgfkggsrgdTEWSQWiQSEkeqLAAVM-ERYGIEWEHLGTHEKHLSVLDYKKQEREK 218
Cdd:cd17242   148 GR---------KKLREL-QDD---YAEAVaKKGGLERGIKGSKAKHKTKEKELKAKHEE 193
Mob_Pre pfam01076
Plasmid recombination enzyme; With some plasmids, recombination can occur in a site specific ...
13-146 2.29e-22

Plasmid recombination enzyme; With some plasmids, recombination can occur in a site specific manner that is independent of RecA. In such cases, the recombination event requires another protein called Pre. Pre is a plasmid recombination enzyme. This protein is also known as Mob (conjugative mobilization). This family is also known as Mob-V. One of the family members, MobM, is encoded by a promiscuous plasmid actively involved in the spread of antibiotic resistance. Homologs of MobM are found in many plasmids and other mobile genetic elements of pathogenic bacteria, including S. aureus. MobM is a metal-dependent nuclease that uses histidine nitrogen for the nucleophilic attack on the scissile phosphate. Furthermore, in contrast to other DNA-processing enzymes, MobM is a histidine relaxase, a DNA-breaking and -joining enzyme, that operates through a phosphorus-nitrogen protein-DNA adduct for cell-to-cell DNA transfer. Mutational analysis indicate that the H(N/D)(Q/E)R N-terminal motif of MobM plays a crucial role in the cleavage and generation of stable DNA-protein adducts.


Pssm-ID: 395854  Cd Length: 195  Bit Score: 93.54  E-value: 2.29e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178  13 KFRAENVDGTRTHLNIDYCNENIKTVYHELFDEALERYNAKQIRSDRKIKDYYEKIRSSKQEK---PFHEIILQVGgKGN 89
Cdd:pfam01076  10 KVKASNLDGIQKHNQRENETYDNKDIDPERSGLNYDLVNDKQIRYDEDIKDYIKENQKSKRKIrkdAVLENEILIT-SDP 88
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1472653178  90 MNADTENGELAKQILDEYYQGFQERNPQLRVFSAHLHMDEATPHLHIDFVPFTTGSK 146
Cdd:pfam01076  89 DFFEQLTYEEAKEFFETAFQFFEERYGKENVLYAVVHLDEATPHMHMGVVPGTEDGR 145
MobV NF041497
MobV family relaxase;
4-205 3.78e-12

MobV family relaxase;


Pssm-ID: 469385  Cd Length: 187  Bit Score: 64.51  E-value: 3.78e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178   4 KGSVNHNSRKFRA---ENVDGTRTHLNIDYCNENI-KTVYHELFDEalerynakQIRSDRKIKDyyeKIRSSKqekpFH- 78
Cdd:NF041497   17 AGSQEHNERETENrtnPNADPSRTHLNFELVNGPDgPIDYLEAIKE--------RIAENAGIKR---KIRKDA----VRa 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178  79 -EIILQvGGKGNMNADTENGELaKQILDEYYQGFQERNPQLRVFSAHLHMDEATPHLHIDFVPFTTGSK---RGLDTRVS 154
Cdd:NF041497   82 vEFILT-GSPEFFKELADPGEL-KEWFEDNYDFLADRYGEENIVSAVVHLDETTPHIHATVVPITEDGRlsaKDVFGRKK 159
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1472653178 155 LKQalatqgfkggsrgdtewsqwIQSEkeqLAAVMERYGIEWEHLGTHEKH 205
Cdd:NF041497  160 LSQ--------------------LQDD---YAEAMKKYGLERGISGSEAKH 187
CCDC158 pfam15921
Coiled-coil domain-containing protein 158; CCDC158 is a family of proteins found in eukaryotes. ...
156-368 1.20e-03

Coiled-coil domain-containing protein 158; CCDC158 is a family of proteins found in eukaryotes. The function is not known.


Pssm-ID: 464943 [Multi-domain]  Cd Length: 1112  Bit Score: 41.26  E-value: 1.20e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178  156 KQALATQGFKGGSRGDTEWSQWIQSEKEQLAAVMERYGIEWEHLGTHEKHLSVLDYKKQEREKEVAALGAKIEQKQIEFD 235
Cdd:pfam15921  448 RQMAAIQGKNESLEKVSSLTAQLESTKEMLRKVVEELTAKKMTLESSERTVSDLTASLQEKERAIEATNAEITKLRSRVD 527
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178  236 VLSERVLNYDKAKDELSNLEIELDtAPKYQLPEPEKFMtakayktKMAEPVVRKLKQLVKtvlarcfegwdnyHRLNTAN 315
Cdd:pfam15921  528 LKLQELQHLKNEGDHLRNVQTECE-ALKLQMAEKDKVI-------EILRQQIENMTQLVG-------------QHGRTAG 586
                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1472653178  316 AQLYRTNQRLEKVNERLTE--ENKILKaeNKDYSLLRKVFGRkqIDDL-LEQARTV 368
Cdd:pfam15921  587 AMQVEKAQLEKEINDRRLElqEFKILK--DKKDAKIRELEAR--VSDLeLEKVKLV 638
 
Name Accession Description Interval E-value
MobM_relaxase cd17242
relaxase domain of MobM and similar proteins; With some plasmids, recombination can occur in a ...
4-218 4.40e-26

relaxase domain of MobM and similar proteins; With some plasmids, recombination can occur in a site-specific manner that is independent of RecA. In such cases, the recombination event requires another protein called Pre (plasmid recombination enzyme), also known as Mob (conjugative mobilization). The best characterized member of this family is encoded by the streptococcal plasmid pMV158 that recognizes the plasmid origin of transfer. MobM converts supercoiled plasmid DNA into relaxed DNA by cleaving a phosphodiester bond of a specific dinucleotide and remains bound to the 5'-end of the nick site.


Pssm-ID: 410988  Cd Length: 196  Bit Score: 103.50  E-value: 4.40e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178   4 KGSVNHNSRKFRAE--NVDGTRTHLNIDYCNENIKTvYHELFDEAL-ERYNAKQIRSDRKIkdYYEKIRSSKQEKpfhei 80
Cdd:cd17242    13 GGALRHNERERETEnpNIDPSRTHLNYELVGPGKKD-YAEAIKERLeELGKKKKIRKDAVL--AVEFILTASPEF----- 84
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178  81 ilqvggkgnmnADTENGELAKQILDEYYQGFQERNPQLRVFSAHLHMDEATPHLHIDFVPFTTgskrglDTRVSLKQALA 160
Cdd:cd17242    85 -----------FEGLDPEEIEEFFKDALEFLKERFGEENIVSAVVHLDETTPHLHAVVVPITE------DGRLSAKELFG 147
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1472653178 161 TQgfkggsrgdTEWSQWiQSEkeqLAAVM-ERYGIEWEHLGTHEKHLSVLDYKKQEREK 218
Cdd:cd17242   148 GR---------KKLREL-QDD---YAEAVaKKGGLERGIKGSKAKHKTKEKELKAKHEE 193
Mob_Pre pfam01076
Plasmid recombination enzyme; With some plasmids, recombination can occur in a site specific ...
13-146 2.29e-22

Plasmid recombination enzyme; With some plasmids, recombination can occur in a site specific manner that is independent of RecA. In such cases, the recombination event requires another protein called Pre. Pre is a plasmid recombination enzyme. This protein is also known as Mob (conjugative mobilization). This family is also known as Mob-V. One of the family members, MobM, is encoded by a promiscuous plasmid actively involved in the spread of antibiotic resistance. Homologs of MobM are found in many plasmids and other mobile genetic elements of pathogenic bacteria, including S. aureus. MobM is a metal-dependent nuclease that uses histidine nitrogen for the nucleophilic attack on the scissile phosphate. Furthermore, in contrast to other DNA-processing enzymes, MobM is a histidine relaxase, a DNA-breaking and -joining enzyme, that operates through a phosphorus-nitrogen protein-DNA adduct for cell-to-cell DNA transfer. Mutational analysis indicate that the H(N/D)(Q/E)R N-terminal motif of MobM plays a crucial role in the cleavage and generation of stable DNA-protein adducts.


Pssm-ID: 395854  Cd Length: 195  Bit Score: 93.54  E-value: 2.29e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178  13 KFRAENVDGTRTHLNIDYCNENIKTVYHELFDEALERYNAKQIRSDRKIKDYYEKIRSSKQEK---PFHEIILQVGgKGN 89
Cdd:pfam01076  10 KVKASNLDGIQKHNQRENETYDNKDIDPERSGLNYDLVNDKQIRYDEDIKDYIKENQKSKRKIrkdAVLENEILIT-SDP 88
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1472653178  90 MNADTENGELAKQILDEYYQGFQERNPQLRVFSAHLHMDEATPHLHIDFVPFTTGSK 146
Cdd:pfam01076  89 DFFEQLTYEEAKEFFETAFQFFEERYGKENVLYAVVHLDEATPHMHMGVVPGTEDGR 145
MobV NF041497
MobV family relaxase;
4-205 3.78e-12

MobV family relaxase;


Pssm-ID: 469385  Cd Length: 187  Bit Score: 64.51  E-value: 3.78e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178   4 KGSVNHNSRKFRA---ENVDGTRTHLNIDYCNENI-KTVYHELFDEalerynakQIRSDRKIKDyyeKIRSSKqekpFH- 78
Cdd:NF041497   17 AGSQEHNERETENrtnPNADPSRTHLNFELVNGPDgPIDYLEAIKE--------RIAENAGIKR---KIRKDA----VRa 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178  79 -EIILQvGGKGNMNADTENGELaKQILDEYYQGFQERNPQLRVFSAHLHMDEATPHLHIDFVPFTTGSK---RGLDTRVS 154
Cdd:NF041497   82 vEFILT-GSPEFFKELADPGEL-KEWFEDNYDFLADRYGEENIVSAVVHLDETTPHIHATVVPITEDGRlsaKDVFGRKK 159
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1472653178 155 LKQalatqgfkggsrgdtewsqwIQSEkeqLAAVMERYGIEWEHLGTHEKH 205
Cdd:NF041497  160 LSQ--------------------LQDD---YAEAMKKYGLERGISGSEAKH 187
CCDC158 pfam15921
Coiled-coil domain-containing protein 158; CCDC158 is a family of proteins found in eukaryotes. ...
156-368 1.20e-03

Coiled-coil domain-containing protein 158; CCDC158 is a family of proteins found in eukaryotes. The function is not known.


Pssm-ID: 464943 [Multi-domain]  Cd Length: 1112  Bit Score: 41.26  E-value: 1.20e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178  156 KQALATQGFKGGSRGDTEWSQWIQSEKEQLAAVMERYGIEWEHLGTHEKHLSVLDYKKQEREKEVAALGAKIEQKQIEFD 235
Cdd:pfam15921  448 RQMAAIQGKNESLEKVSSLTAQLESTKEMLRKVVEELTAKKMTLESSERTVSDLTASLQEKERAIEATNAEITKLRSRVD 527
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1472653178  236 VLSERVLNYDKAKDELSNLEIELDtAPKYQLPEPEKFMtakayktKMAEPVVRKLKQLVKtvlarcfegwdnyHRLNTAN 315
Cdd:pfam15921  528 LKLQELQHLKNEGDHLRNVQTECE-ALKLQMAEKDKVI-------EILRQQIENMTQLVG-------------QHGRTAG 586
                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1472653178  316 AQLYRTNQRLEKVNERLTE--ENKILKaeNKDYSLLRKVFGRkqIDDL-LEQARTV 368
Cdd:pfam15921  587 AMQVEKAQLEKEINDRRLElqEFKILK--DKKDAKIRELEAR--VSDLeLEKVKLV 638
 
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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