1B27

STRUCTURAL RESPONSE TO MUTATION AT A PROTEIN-PROTEIN INTERFACE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.195 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural response to mutation at a protein-protein interface.

Vaughan, C.K.Buckle, A.M.Fersht, A.R.

(1999) J.Mol.Biol. 286: 1487-1506

  • DOI: 10.1006/jmbi.1998.2559
  • Primary Citation of Related Structures:  1B2S, 1B2U, 1B3S

  • PubMed Abstract: 
  • We have crystallised three mutants of the barnase-barstar complex in which interactions across the interface have been deleted by simultaneous mutation of both residues involved in the interaction. Each mutant deletes a different type of interaction ...

    We have crystallised three mutants of the barnase-barstar complex in which interactions across the interface have been deleted by simultaneous mutation of both residues involved in the interaction. Each mutant deletes a different type of interaction at the interface: the first complex bnHis102-->Ala-bsTyr29-->Phe (bn, barnase; bs, barstar), deletes a van der Waals packing interaction; the second complex, bnLys27-->Ala-bsThr42-->Ala, deletes a hydrogen bond; the third, bnLys27-->Ala-bsAsp35-->Ala, deletes a long-range charge-charge interaction. The contribution of each of these side-chains to the stability of the complex is known; the coupling energy between the deleted side-chains is also known. Despite each of the double mutants being significantly destabilised compared with the wild-type, the effects of mutation are local. Only small movements in the main-chain surrounding the sites of mutation and some larger movements of neighbouring side-chains are observed in the mutant complexes. The exact response to mutation is context-dependent and for the same mutant can vary depending upon the environment within the crystal. In some double mutant complexes, interfacial pockets, which are accessible to bulk solvent are formed, whereas interfacial cavities which are isolated from bulk solvent, are formed in others. In all double mutants, water molecules fill the created pockets and cavities. These water molecules mimic the deleted side-chains by occupying positions close to the non-carbon atoms of truncated side-chains and re-making many hydrogen bonds made by the truncated side-chains in the wild-type. It remains extremely difficult, however, to correlate energetic and structural responses to mutation because of unknown changes in entropy and entropy-enthalpy compensation.


    Related Citations: 
    • Protein-Protein Recognition: Crystal Structural Analysis of a Barnase-Barstar Complex at 2.0-A Resolution
      Buckle, A.M.,Schreiber, G.,Fersht, A.R.
      (1994) Biochemistry 33: 8878
    • Recognition between a Bacterial Ribonuclease, Barnase, and its Natural Inhibitor, Barstar
      Guillet, V.,Lapthorn, A.,Hartley, R.W.,Mauguen, Y.
      (1993) Structure 1: 165
    • Stability and Function: Two Constraints in the Evolution of Barstar and Other Proteins
      Schreiber, G.,Buckle, A.M.,Fersht, A.R.
      (1994) Structure 2: 945
    • Interaction of Barnase with its Polypeptide Inhibitor Barstar Studied by Protein Engineering
      Schreiber, G.,Fersht, A.R.
      (1993) Biochemistry 32: 5145
    • Molecular Structures of a New Family of Ribonucleases
      Mauguen, Y.,Hartley, R.W.,Dodson, E.J.,Dodson, G.G.,Bricogne, G.,Chothia, C.,Jack, A.
      (1982) Nature 297: 162


    Organizational Affiliation

    MRC Centre for Protein Engineering, Hills Road, Cambridge, CB2 2QH, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PROTEIN (BARNASE)
A, B, C
110Bacillus amyloliquefaciensEC: 3.1.27.-
Find proteins for P00648 (Bacillus amyloliquefaciens)
Go to UniProtKB:  P00648
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
PROTEIN (BARSTAR)
D, E, F
90Bacillus amyloliquefaciensN/A
Find proteins for P11540 (Bacillus amyloliquefaciens)
Go to UniProtKB:  P11540
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.195 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 202.917α = 90.00
b = 43.319β = 110.50
c = 83.177γ = 90.00
Software Package:
Software NamePurpose
X-PLORmodel building
CCP4data scaling
X-PLORphasing
REFMACrefinement
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1998-12-09
    Type: Initial release
  • Version 1.1: 2008-04-26
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance