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Conserved domains on  [gi|29242910|gb|AAO66607|]
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RepA [Shuttle vector pEC-S18mob2]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Replicase super family cl03886
Replicase family; This is a family of bacterial plasmid DNA replication initiator proteins. ...
 77-224 3.03e-31

Replicase family; This is a family of bacterial plasmid DNA replication initiator proteins. Pfam: PF01051 is a similar family. These RepA proteins exist as monomers and dimers in equilibrium: monomers bind directly to repeated DNA sequences and thus activate replication; dimers repress repA transcription by binding an inversely repeated DNA operator. Dimer dissociation can occur spontaneously or be mediated by Hsp70 chaperones.


The actual alignment was detected with superfamily member pfam03090:

Pssm-ID: 427129  Cd Length: 128  Bit Score: 117.08  E-value: 3.03e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 29242910    77 KLYRAGSKALtRCQYVALTHAQHAAVIVLDIDVPshQAGGKIEHVNpqvyailekwarlEKAPAWIGVNPLSGKCQLIWL 156
Cdd:pfam03090   1 LKVRPREDAL-QYPYVQLNPPQLASWLVFDLDHP--DAGLRWEDAG-------------LPPPNLIVINPVNGHCHLLYG 64

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 29242910   157 I-DPVYAAAGKTSPNMRLLAATTEEMTRVFGADQAFSHRLSRWPLHvsddpTAYKWHCQHDRVDRLADL 224
Cdd:pfam03090  65 LkDPVYTTENARSKPLRYMKAVTEALRARLDADPAYSGLISKNPFH-----TAWRTHEQHPRVYDLGDL 128
 
Name Accession Description Interval E-value
Replicase pfam03090
Replicase family; This is a family of bacterial plasmid DNA replication initiator proteins. ...
 77-224 3.03e-31

Replicase family; This is a family of bacterial plasmid DNA replication initiator proteins. Pfam: PF01051 is a similar family. These RepA proteins exist as monomers and dimers in equilibrium: monomers bind directly to repeated DNA sequences and thus activate replication; dimers repress repA transcription by binding an inversely repeated DNA operator. Dimer dissociation can occur spontaneously or be mediated by Hsp70 chaperones.


Pssm-ID: 427129  Cd Length: 128  Bit Score: 117.08  E-value: 3.03e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 29242910    77 KLYRAGSKALtRCQYVALTHAQHAAVIVLDIDVPshQAGGKIEHVNpqvyailekwarlEKAPAWIGVNPLSGKCQLIWL 156
Cdd:pfam03090   1 LKVRPREDAL-QYPYVQLNPPQLASWLVFDLDHP--DAGLRWEDAG-------------LPPPNLIVINPVNGHCHLLYG 64

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 29242910   157 I-DPVYAAAGKTSPNMRLLAATTEEMTRVFGADQAFSHRLSRWPLHvsddpTAYKWHCQHDRVDRLADL 224
Cdd:pfam03090  65 LkDPVYTTENARSKPLRYMKAVTEALRARLDADPAYSGLISKNPFH-----TAWRTHEQHPRVYDLGDL 128
 
Name Accession Description Interval E-value
Replicase pfam03090
Replicase family; This is a family of bacterial plasmid DNA replication initiator proteins. ...
 77-224 3.03e-31

Replicase family; This is a family of bacterial plasmid DNA replication initiator proteins. Pfam: PF01051 is a similar family. These RepA proteins exist as monomers and dimers in equilibrium: monomers bind directly to repeated DNA sequences and thus activate replication; dimers repress repA transcription by binding an inversely repeated DNA operator. Dimer dissociation can occur spontaneously or be mediated by Hsp70 chaperones.


Pssm-ID: 427129  Cd Length: 128  Bit Score: 117.08  E-value: 3.03e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 29242910    77 KLYRAGSKALtRCQYVALTHAQHAAVIVLDIDVPshQAGGKIEHVNpqvyailekwarlEKAPAWIGVNPLSGKCQLIWL 156
Cdd:pfam03090   1 LKVRPREDAL-QYPYVQLNPPQLASWLVFDLDHP--DAGLRWEDAG-------------LPPPNLIVINPVNGHCHLLYG 64

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 29242910   157 I-DPVYAAAGKTSPNMRLLAATTEEMTRVFGADQAFSHRLSRWPLHvsddpTAYKWHCQHDRVDRLADL 224
Cdd:pfam03090  65 LkDPVYTTENARSKPLRYMKAVTEALRARLDADPAYSGLISKNPFH-----TAWRTHEQHPRVYDLGDL 128
 
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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