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Conserved domains on  [gi|161702516|gb|ABX76146|]
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RepA, partial [Burkholderia cenocepacia]

Protein Classification

replication initiation protein( domain architecture ID 139766)

replication initiation protein is essential for plasmid DNA replication

CATH:  1.10.10.10
Gene Ontology:  GO:0006270|GO:0003887
SCOP:  4000166

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DUF5710 super family cl46755
Domain of unknown function (DUF5710); This is a domain of unknown function which can be found ...
 1-89 3.07e-10

Domain of unknown function (DUF5710); This is a domain of unknown function which can be found in DNA primases such as TraC.


The actual alignment was detected with superfamily member COG5527:

Pssm-ID: 481095  Cd Length: 259  Bit Score: 55.14  E-value: 3.07e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161702516   1 RRMVSVQVEWStgtssQKPGRKWGISTLIADAEILEDpttrRVWVEFSFAPKIKKKLLD-PVQYARLSLQFQSQLRSSAG 79
Cdd:COG5527   25 ERLMKKMIEIE-----EEDGKKWEQFPLFSSAEYNKG----EGTIELRFSPELKPYLLDlKKNFTKYELENVLSLKSKYS 95

                         90
                 ....*....|
gi 161702516  80 LALYEICVRY 89
Cdd:COG5527   96 IRLYELLKQY 105
 
Name Accession Description Interval E-value
COG5527 COG5527
Protein involved in initiation of plasmid replication [Mobilome: prophages, transposons];
1-89 3.07e-10

Protein involved in initiation of plasmid replication [Mobilome: prophages, transposons];


Pssm-ID: 444278  Cd Length: 259  Bit Score: 55.14  E-value: 3.07e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161702516   1 RRMVSVQVEWStgtssQKPGRKWGISTLIADAEILEDpttrRVWVEFSFAPKIKKKLLD-PVQYARLSLQFQSQLRSSAG 79
Cdd:COG5527   25 ERLMKKMIEIE-----EEDGKKWEQFPLFSSAEYNKG----EGTIELRFSPELKPYLLDlKKNFTKYELENVLSLKSKYS 95

                         90
                 ....*....|
gi 161702516  80 LALYEICVRY 89
Cdd:COG5527   96 IRLYELLKQY 105
Rep_3 pfam01051
Initiator Replication protein; This protein is an initiator of plasmid replication. RepB ...
 44-115 2.53e-05

Initiator Replication protein; This protein is an initiator of plasmid replication. RepB possesses nicking-closing (topoisomerase I) like activity. It is also able to perform a strand transfer reaction on ssDNA that contains its target. This family also includes RepA which is an E.coli protein involved in plasmid replication. The RepA protein binds to DNA repeats that flank the repA gene.


Pssm-ID: 460042  Cd Length: 218  Bit Score: 41.50  E-value: 2.53e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 161702516   44 WVEFSFAPKIKKKLLDPV-QYARLSLQFQSQLRSSAGLALYEICVRYlTNPSHLTMrePWEWWRPILSGTPDT 115
Cdd:pfam01051 104 KVEIEFSPDLKPYLLELKkNFTQYELKEFLKLKSKYSIRLYELLKQY-RSTGKREI--SLEELRELLGIPKSY 173
 
Name Accession Description Interval E-value
COG5527 COG5527
Protein involved in initiation of plasmid replication [Mobilome: prophages, transposons];
1-89 3.07e-10

Protein involved in initiation of plasmid replication [Mobilome: prophages, transposons];


Pssm-ID: 444278  Cd Length: 259  Bit Score: 55.14  E-value: 3.07e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 161702516   1 RRMVSVQVEWStgtssQKPGRKWGISTLIADAEILEDpttrRVWVEFSFAPKIKKKLLD-PVQYARLSLQFQSQLRSSAG 79
Cdd:COG5527   25 ERLMKKMIEIE-----EEDGKKWEQFPLFSSAEYNKG----EGTIELRFSPELKPYLLDlKKNFTKYELENVLSLKSKYS 95

                         90
                 ....*....|
gi 161702516  80 LALYEICVRY 89
Cdd:COG5527   96 IRLYELLKQY 105
Rep_3 pfam01051
Initiator Replication protein; This protein is an initiator of plasmid replication. RepB ...
 44-115 2.53e-05

Initiator Replication protein; This protein is an initiator of plasmid replication. RepB possesses nicking-closing (topoisomerase I) like activity. It is also able to perform a strand transfer reaction on ssDNA that contains its target. This family also includes RepA which is an E.coli protein involved in plasmid replication. The RepA protein binds to DNA repeats that flank the repA gene.


Pssm-ID: 460042  Cd Length: 218  Bit Score: 41.50  E-value: 2.53e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 161702516   44 WVEFSFAPKIKKKLLDPV-QYARLSLQFQSQLRSSAGLALYEICVRYlTNPSHLTMrePWEWWRPILSGTPDT 115
Cdd:pfam01051 104 KVEIEFSPDLKPYLLELKkNFTQYELKEFLKLKSKYSIRLYELLKQY-RSTGKREI--SLEELRELLGIPKSY 173
 
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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