1B01

TRANSCRIPTIONAL REPRESSOR COPG/DNA COMPLEX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.56 Å
  • R-Value Free: 0.316 
  • R-Value Work: 0.247 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The structure of plasmid-encoded transcriptional repressor CopG unliganded and bound to its operator.

Gomis-Ruth, F.X.Sola, M.Acebo, P.Parraga, A.Guasch, A.Eritja, R.Gonzalez, A.Espinosa, M.del Solar, G.Coll, M.

(1998) EMBO J. 17: 7404-7415

  • DOI: 10.1093/emboj/17.24.7404
  • Primary Citation of Related Structures:  2CPG
  • Also Cited By: 1EA4

  • PubMed Abstract: 
  • The structure of the 45 amino acid transcriptional repressor, CopG, has been solved unliganded and bound to its target operator DNA. The protein, encoded by the promiscuous streptococcal plasmid pMV158, is involved in the control of plasmid copy numb ...

    The structure of the 45 amino acid transcriptional repressor, CopG, has been solved unliganded and bound to its target operator DNA. The protein, encoded by the promiscuous streptococcal plasmid pMV158, is involved in the control of plasmid copy number. The structure of this protein repressor, which is the shortest reported to date and the first isolated from a plasmid, has a homodimeric ribbon-helix-helix arrangement. It is the prototype for a family of homologous plasmid repressors. CopG cooperatively associates, completely protecting several turns on one face of the double helix in both directions from a 13-bp pseudosymmetric primary DNA recognition element. In the complex structure, one protein tetramer binds at one face of a 19-bp oligonucleotide, containing the pseudosymmetric element, with two beta-ribbons inserted into the major groove. The DNA is bent 60 degrees by compression of both major and minor grooves. The protein dimer displays topological similarity to Arc and MetJ repressors. Nevertheless, the functional tetramer has a unique structure with the two vicinal recognition ribbon elements at a short distance, thus inducing strong DNA bend. Further structural resemblance is found with helix-turn-helix regions of unrelated DNA-binding proteins. In contrast to these, however, the bihelical region of CopG has a role in oligomerization instead of DNA recognition. This observation unveils an evolutionary link between ribbon-helix-helix and helix-turn-helix proteins.


    Related Citations: 
    • Overexpression, Purification, Crystallization and Preliminary X-Ray Diffraction Analysis of the Pmv158-Encoded Plasmid Transcriptional Repressor Protein Copg
      Gomis-Rueth, F.X.,Sola, M.,Perez-Luque, R.,Acebo, P.,Alda, M.T.,Gonzalez, A.,Espinosa, M.,del Solar, G.,Coll, M.
      (1998) FEBS Lett. 425: 161


    Organizational Affiliation

    Institut de Biologia Molecular de Barcelona, CSIC, Jordi Girona, 18-26, 08034 Barcelona, Spain.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
TRANSCRIPTIONAL REPRESSOR COPG
A, B
45Streptococcus agalactiaeGene Names: copG (repA)
Find proteins for P13920 (Streptococcus agalactiae)
Go to UniProtKB:  P13920
Entity ID: 1
MoleculeChainsLengthOrganism
DNA (5'-D(*CP*CP*CP*GP*TP*GP*CP*AP*CP*TP*CP*AP*AP*TP*GP*CP*AP*AP*T)-3')E19N/A
Entity ID: 2
MoleculeChainsLengthOrganism
DNA (5'-D(*GP*AP*TP*TP*GP*CP*AP*TP*TP*GP*AP*GP*TP*GP*CP*AP*CP*GP*G)-3')F19N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.56 Å
  • R-Value Free: 0.316 
  • R-Value Work: 0.247 
  • Space Group: P 43 2 2
Unit Cell:
Length (Å)Angle (°)
a = 40.300α = 90.00
b = 40.300β = 90.00
c = 221.560γ = 90.00
Software Package:
Software NamePurpose
MOSFLMdata reduction
CCP4model building
CCP4phasing
CCP4data scaling
X-PLORrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1999-11-19
    Type: Initial release
  • Version 1.1: 2008-04-26
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance