1IGD

THE THIRD IGG-BINDING DOMAIN FROM STREPTOCOCCAL PROTEIN G: AN ANALYSIS BY X-RAY CRYSTALLOGRAPHY OF THE STRUCTURE ALONE AND IN A COMPLEX WITH FAB


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.1 Å

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The third IgG-binding domain from streptococcal protein G. An analysis by X-ray crystallography of the structure alone and in a complex with Fab.

Derrick, J.P.Wigley, D.B.

(1994) J.Mol.Biol. 243: 906-918

  • DOI: 10.1006/jmbi.1994.1691
  • Primary Citation of Related Structures:  1IGC

  • PubMed Abstract: 
  • Protein G is a cell surface-associated protein from Streptococcus that binds to IgG with high affinity. We have determined the X-ray crystal structures of the third IgG-binding domain (domain III) alone to a resolution of 1.1 A (final R-factor of 19. ...

    Protein G is a cell surface-associated protein from Streptococcus that binds to IgG with high affinity. We have determined the X-ray crystal structures of the third IgG-binding domain (domain III) alone to a resolution of 1.1 A (final R-factor of 19.3%), and in complex with an Fab fragment to 2.6 A (final R-factor of 16.8%). The structure of domain III is similar to the lower-resolution crystal structures of protein G domains determined previously by other investigators, but shows some minor differences when compared with the equivalent NMR structures. Domain III binds to the immunoglobulin by formation of an antiparallel interaction between the second beta-strand in domain III and the last beta-strand in the CH 1 domain. There is also a minor site of interaction between the C-terminal end of the alpha-helix in protein G and the first beta-strand in the CH 1 domain. Previous studies by NMR on the interactions between protein G and IgG have concluded that different portions of the protein G domain are involved in binding to the Fab and Fc portions. The results presented here support these findings and permit a detailed analysis of the recognition of Fab by protein G; formation of the complex buries a large water-accessible area, of a magnitude comparable with that found in antibody/antigen interactions. The majority of hydrogen bonds between the two proteins involve main-chain atoms from the CH 1 domain. The CH 1 domain residues that are in contact with protein G are shown to be highly conserved in alignments of mouse and human gamma chain amino acid sequences. We conclude that the binding site for protein G on Fab is relatively invariant across different species and gamma chain subclasses, providing an explanation for the widespread recognition of Fab fragments from mouse and human antibodies by protein G. The solution of the crystal structures of domain III alone and bound to Fab has demonstrated that there is no major structural change apparent in either protein on formation of the complex.


    Related Citations: 
    • A Novel, Highly Stable Fold of the Immunoglobulin Binding Domain of Streptococcal Protein G
      Gronenborn, A.M.,Filpula, D.R.,Essig, N.Z.,Achari, A.,Whitlow, M.,Wingfield, P.T.,Clore, G.M.
      (1991) Science 253: 657
    • Determination of the Solution Structures of Domains II and III of Protein G from Streptococcus by 1H Nuclear Magnetic Resonance
      Lian, L.Y.,Derrick, J.P.,Sutcliffe, M.J.,Yang, J.C.,Roberts, G.C.K.
      (1992) J.Mol.Biol. 228: 1219
    • Crystal Structure of a Streptococcal Protein G Domain Bound to an Fab Fragment
      Derrick, J.P.,Wigley, D.B.
      (1992) Nature 359: 752
    • Two Crystal Structures of the B1 Immunoglobulin-Binding Domain of Streptococcal Protein G and Comparison with NMR
      Gallagher, T.,Alexander, P.,Bryan, P.,Gilliland, G.L.
      (1994) Biochemistry 33: 4721
    • 1.67 Angstroms X-Ray Structure of the B2 Immunoglobulin-Binding Domain of Streptococcal Protein G and Comparison to the NMR Structure of the B1 Domain
      Achari, A.,Hale, S.P.,Howard, A.J.,Clore, G.M.,Gronenborn, A.M.,Hardman, K.D.,Whitlow, M.
      (1992) Biochemistry 31: 10449


    Organizational Affiliation

    Department of Biochemistry, University of Leicester, U.K.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PROTEIN G
A
61Streptococcus sp. group GGene Names: spg
Find proteins for P06654 (Streptococcus sp. group G)
Go to UniProtKB:  P06654
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.1 Å
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 34.900α = 90.00
b = 40.300β = 90.00
c = 42.200γ = 90.00
Software Package:
Software NamePurpose
PROLSQrefinement
X-PLORmodel building
X-PLORrefinement
X-PLORphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1994-11-01
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance