1FGU

SSDNA-BINDING DOMAIN OF THE LARGE SUBUNIT OF REPLICATION PROTEIN A


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.281 
  • R-Value Work: 0.215 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of the major single-stranded DNA-binding domain of replication protein A suggests a dynamic mechanism for DNA binding.

Bochkareva, E.Belegu, V.Korolev, S.Bochkarev, A.

(2001) EMBO J. 20: 612-618

  • DOI: 10.1093/emboj/20.3.612

  • PubMed Abstract: 
  • Although structures of single-stranded (ss)DNA-binding proteins (SSBs) have been reported with and without ssDNA, the mechanism of ssDNA binding in eukarya remains speculative. Here we report a 2.5 Angstroms structure of the ssDNA-binding domain of h ...

    Although structures of single-stranded (ss)DNA-binding proteins (SSBs) have been reported with and without ssDNA, the mechanism of ssDNA binding in eukarya remains speculative. Here we report a 2.5 Angstroms structure of the ssDNA-binding domain of human replication protein A (RPA) (eukaryotic SSB), for which we previously reported a structure in complex with ssDNA. A comparison of free and bound forms of RPA revealed that ssDNA binding is associated with a major reorientation between, and significant conformational changes within, the structural modules--OB-folds--which comprise the DNA-binding domain. Two OB-folds, whose tandem orientation was stabilized by the presence of DNA, adopted multiple orientations in its absence. Within the OB-folds, extended loops implicated in DNA binding significantly changed conformation in the absence of DNA. Analysis of intermolecular contacts suggested the possibility that other RPA molecules and/or other proteins could compete with DNA for the same binding site. Using this mechanism, protein-protein interactions can regulate, and/or be regulated by DNA binding. Combined with available biochemical data, this structure also suggested a dynamic model for the DNA-binding mechanism.


    Related Citations: 
    • Structure of the Single-stranded-DNA-binding Domain of Replication Protein A Bound to DNA
      Bochkarev, A.,Pfuetzner, R.A.,Edwards, A.M.,Frappier, L.
      (1997) Nature 385: 176
    • Replication Protein A: Characterization and Crystallization of the DNA-binding Domain
      Pfuetzner, R.A.,Bochkarev, A.,Frappier, L.,Edwards, A.M.
      (1997) J.Biol.Chem. 272: 430


    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, The University of Oklahoma Health Sciences Center, 975 NE 10th Street, BRC-466, Oklahoma City, OK 73190, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
REPLICATION PROTEIN A 70 KDA DNA-BINDING SUBUNIT
A, B
252Homo sapiensMutation(s): 0 
Gene Names: RPA1 (REPA1, RPA70)
Find proteins for P27694 (Homo sapiens)
Go to Gene View: RPA1
Go to UniProtKB:  P27694
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.281 
  • R-Value Work: 0.215 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 63.500α = 90.00
b = 84.860β = 90.00
c = 119.110γ = 90.00
Software Package:
Software NamePurpose
PHASESphasing
SHARPphasing
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2001-02-07
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance