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Conserved domains on  [gi|313495144|gb|ADR57705|]
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RepA [C. glutamicum-E. coli shuttle vector pCRB62]

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. ...
 75-221 1.11e-37

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: 134.41  E-value: 1.11e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 313495144   75 RLYRVDSEALaRCQYVMLTTQQYAAVLVVDIDQPGqSGGHPADLspevrqrmsaliehNL-GPSWVGINPQNGKAQAIWL 153
Cdd:pfam03090   1 LKVRPREDAL-QYPYVQLNPPQLASWLVFDLDHPD-AGLRWEDA--------------GLpPPNLIVINPVNGHCHLLYG 64

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 313495144  154 I-DPVYADKSGKSRHMSLLAATSRALGELLDHDPNFSHRFSRSPFYdgndpTAYRWYCQHKRVRRLADL 221
Cdd:pfam03090  65 LkDPVYTTENARSKPLRYMKAVTEALRARLDADPAYSGLISKNPFH-----TAWRTHEQHPRVYDLGDL 128
HTH_24 pfam13412
Winged helix-turn-helix DNA-binding;
454-480 2.13e-03

Winged helix-turn-helix DNA-binding;


:

Pssm-ID: 404317 [Multi-domain]  Cd Length: 45  Bit Score: 35.87  E-value: 2.13e-03
                          10        20
                  ....*....|....*....|....*..
gi 313495144  454 SWREIADDLGLSRATVARHVAVLKKSG 480
Cdd:pfam13412  17 SQRELAERLGLSPSTVNRRLKRLEEEG 43
 
Name Accession Description Interval E-value
Replicase pfam03090
Replicase family; This is a family of bacterial plasmid DNA replication initiator proteins. ...
 75-221 1.11e-37

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: 134.41  E-value: 1.11e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 313495144   75 RLYRVDSEALaRCQYVMLTTQQYAAVLVVDIDQPGqSGGHPADLspevrqrmsaliehNL-GPSWVGINPQNGKAQAIWL 153
Cdd:pfam03090   1 LKVRPREDAL-QYPYVQLNPPQLASWLVFDLDHPD-AGLRWEDA--------------GLpPPNLIVINPVNGHCHLLYG 64

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 313495144  154 I-DPVYADKSGKSRHMSLLAATSRALGELLDHDPNFSHRFSRSPFYdgndpTAYRWYCQHKRVRRLADL 221
Cdd:pfam03090  65 LkDPVYTTENARSKPLRYMKAVTEALRARLDADPAYSGLISKNPFH-----TAWRTHEQHPRVYDLGDL 128
HTH_24 pfam13412
Winged helix-turn-helix DNA-binding;
454-480 2.13e-03

Winged helix-turn-helix DNA-binding;


Pssm-ID: 404317 [Multi-domain]  Cd Length: 45  Bit Score: 35.87  E-value: 2.13e-03
                          10        20
                  ....*....|....*....|....*..
gi 313495144  454 SWREIADDLGLSRATVARHVAVLKKSG 480
Cdd:pfam13412  17 SQRELAERLGLSPSTVNRRLKRLEEEG 43
HTH_CRP cd00092
helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic ...
 435-480 4.35e-03

helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.


Pssm-ID: 238044 [Multi-domain]  Cd Length: 67  Bit Score: 35.72  E-value: 4.35e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 313495144 435 KSRISQMVNDQYLQTGTIP------SWREIADDLGLSRATVARHVAVLKKSG 480
Cdd:cd00092    2 KERLASFLLNLSLRYGAGDlvqlplTRQEIADYLGLTRETVSRTLKELEEEG 53
HTH_ARSR smart00418
helix_turn_helix, Arsenical Resistance Operon Repressor;
457-480 5.07e-03

helix_turn_helix, Arsenical Resistance Operon Repressor;


Pssm-ID: 197713 [Multi-domain]  Cd Length: 66  Bit Score: 35.65  E-value: 5.07e-03
                           10        20
                   ....*....|....*....|....
gi 313495144   457 EIADDLGLSRATVARHVAVLKKSG 480
Cdd:smart00418  15 ELAEILGLSQSTVSHHLKKLREAG 38
LexA COG1974
SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase) [Transcription, ...
 438-480 6.95e-03

SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase) [Transcription, Signal transduction mechanisms];


Pssm-ID: 441577 [Multi-domain]  Cd Length: 199  Bit Score: 37.97  E-value: 6.95e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 313495144 438 ISQMVNDQYLQTGTIPSWREIADDLGLSRATVARHVAVLKKSG 480
Cdd:COG1974   11 ILDFIKEYIRERGYPPSQREIAEALGLSSSAVHRHLKALEKKG 53
 
Name Accession Description Interval E-value
Replicase pfam03090
Replicase family; This is a family of bacterial plasmid DNA replication initiator proteins. ...
 75-221 1.11e-37

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: 134.41  E-value: 1.11e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 313495144   75 RLYRVDSEALaRCQYVMLTTQQYAAVLVVDIDQPGqSGGHPADLspevrqrmsaliehNL-GPSWVGINPQNGKAQAIWL 153
Cdd:pfam03090   1 LKVRPREDAL-QYPYVQLNPPQLASWLVFDLDHPD-AGLRWEDA--------------GLpPPNLIVINPVNGHCHLLYG 64

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 313495144  154 I-DPVYADKSGKSRHMSLLAATSRALGELLDHDPNFSHRFSRSPFYdgndpTAYRWYCQHKRVRRLADL 221
Cdd:pfam03090  65 LkDPVYTTENARSKPLRYMKAVTEALRARLDADPAYSGLISKNPFH-----TAWRTHEQHPRVYDLGDL 128
HTH_24 pfam13412
Winged helix-turn-helix DNA-binding;
454-480 2.13e-03

Winged helix-turn-helix DNA-binding;


Pssm-ID: 404317 [Multi-domain]  Cd Length: 45  Bit Score: 35.87  E-value: 2.13e-03
                          10        20
                  ....*....|....*....|....*..
gi 313495144  454 SWREIADDLGLSRATVARHVAVLKKSG 480
Cdd:pfam13412  17 SQRELAERLGLSPSTVNRRLKRLEEEG 43
HTH_CRP cd00092
helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic ...
 435-480 4.35e-03

helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.


Pssm-ID: 238044 [Multi-domain]  Cd Length: 67  Bit Score: 35.72  E-value: 4.35e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 313495144 435 KSRISQMVNDQYLQTGTIP------SWREIADDLGLSRATVARHVAVLKKSG 480
Cdd:cd00092    2 KERLASFLLNLSLRYGAGDlvqlplTRQEIADYLGLTRETVSRTLKELEEEG 53
HTH_ARSR smart00418
helix_turn_helix, Arsenical Resistance Operon Repressor;
457-480 5.07e-03

helix_turn_helix, Arsenical Resistance Operon Repressor;


Pssm-ID: 197713 [Multi-domain]  Cd Length: 66  Bit Score: 35.65  E-value: 5.07e-03
                           10        20
                   ....*....|....*....|....
gi 313495144   457 EIADDLGLSRATVARHVAVLKKSG 480
Cdd:smart00418  15 ELAEILGLSQSTVSHHLKKLREAG 38
HTH_CRP smart00419
helix_turn_helix, cAMP Regulatory protein;
454-480 5.47e-03

helix_turn_helix, cAMP Regulatory protein;


Pssm-ID: 128696 [Multi-domain]  Cd Length: 48  Bit Score: 34.72  E-value: 5.47e-03
                           10        20
                   ....*....|....*....|....*..
gi 313495144   454 SWREIADDLGLSRATVARHVAVLKKSG 480
Cdd:smart00419  10 TRQEIAELLGLTRETVSRTLKRLEKEG 36
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 457-480 5.86e-03

Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.


Pssm-ID: 238042 [Multi-domain]  Cd Length: 78  Bit Score: 35.74  E-value: 5.86e-03
                         10        20
                 ....*....|....*....|....
gi 313495144 457 EIADDLGLSRATVARHVAVLKKSG 480
Cdd:cd00090   25 ELAERLGLSQSTVSRHLKKLEEAG 48
LexA COG1974
SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase) [Transcription, ...
 438-480 6.95e-03

SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase) [Transcription, Signal transduction mechanisms];


Pssm-ID: 441577 [Multi-domain]  Cd Length: 199  Bit Score: 37.97  E-value: 6.95e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 313495144 438 ISQMVNDQYLQTGTIPSWREIADDLGLSRATVARHVAVLKKSG 480
Cdd:COG1974   11 ILDFIKEYIRERGYPPSQREIAEALGLSSSAVHRHLKALEKKG 53
ArsR COG0640
DNA-binding transcriptional regulator, ArsR family [Transcription];
457-480 8.76e-03

DNA-binding transcriptional regulator, ArsR family [Transcription];


Pssm-ID: 440405 [Multi-domain]  Cd Length: 92  Bit Score: 35.64  E-value: 8.76e-03
                         10        20
                 ....*....|....*....|....
gi 313495144 457 EIADDLGLSRATVARHVAVLKKSG 480
Cdd:COG0640   38 ELAEALGLSQSTVSHHLKVLREAG 61
HTH_5 pfam01022
Bacterial regulatory protein, arsR family; Members of this family contains a DNA binding ...
 457-480 9.28e-03

Bacterial regulatory protein, arsR family; Members of this family contains a DNA binding 'helix-turn-helix' motif. This family includes other proteins which are not included in the Prosite definition.


Pssm-ID: 425993 [Multi-domain]  Cd Length: 45  Bit Score: 34.34  E-value: 9.28e-03
                          10        20
                  ....*....|....*....|....
gi 313495144  457 EIADDLGLSRATVARHVAVLKKSG 480
Cdd:pfam01022  20 ELAEELGLSQSTVSHHLKKLREAG 43
 
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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