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STRUCTURE DETERMINATION OF AN FAB FRAGMENT THAT NEUTRALIZES HUMAN RHINOVIRUS AND ANALYSIS OF THE FAB-VIRUS COMPLEX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Work: 0.174 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structure determination of an Fab fragment that neutralizes human rhinovirus 14 and analysis of the Fab-virus complex.

Liu, H.Smith, T.J.Lee, W.M.Mosser, A.G.Rueckert, R.R.Olson, N.H.Cheng, R.H.Baker, T.S.

(1994) J.Mol.Biol. 240: 127-137

  • DOI: 10.1006/jmbi.1994.1427

  • PubMed Abstract: 
  • The crystal structure of Fab17-IA, an antigen-binding fragment from a murine immunoglobulin that neutralizes human rhinovirus 14 (HRV14), has been solved to 2.7 A resolution. Fab17-IA crystallized into three different space groups depending upon the ...

    The crystal structure of Fab17-IA, an antigen-binding fragment from a murine immunoglobulin that neutralizes human rhinovirus 14 (HRV14), has been solved to 2.7 A resolution. Fab17-IA crystallized into three different space groups depending upon the method used to purify the intact antibody. The structure was determined by use of molecular and isomorphous replacement methods. The current model has a crystallographic R-factor of approximately 19% for 10,192 independent reflections between 8 and 2.7 A. Correlation coefficient calculations showed that the Fab17-IA structure can be fit into the Fab17-IA/HRV14 image reconstruction density to within 5 A positional accuracy and to within a few degrees of rotation. The resulting interface of the docked antibody was examined and showed extensive charge and shape complementarity with the virus surface that was supported by site-directed mutagenesis experiments. The success of this approach validates the utility of combining X-ray crystallography with cryo-electron microscopy of complex macromolecular assemblies.


    Related Citations: 
    • Structure of Human Rhinovirus Complexed with Fab Fragments from a Neutralizing Antibody
      Smith, T.J.,Olson, N.H.,Cheng, R.H.,Liu, H.,Chase, E.S.,Lee, W.M.,Leippe, D.M.,Mosser, A.G.,Rueckert, R.R.,Baker, T.S.
      (1993) J.Virol. 67: 1148
    • Structure of a Human Rhinovirus-Bivalently Bound Antibody Complex: Implications for Viral Neutralization and Antibody Flexibility
      Smith, T.J.,Olson, N.H.,Cheng, R.H.,Chase, E.S.,Baker, T.S.
      (1993) Proc.Natl.Acad.Sci.USA 90: 7015


    Organizational Affiliation

    Department of Biological Sciences, Purdue University, West Lafayette, IN 47907-1392.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
IGG2A-KAPPA 17-IA FAB (LIGHT CHAIN)
L
210N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
IGG2A-KAPPA 17-IA FAB (HEAVY CHAIN)
H
219N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Work: 0.174 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 37.800α = 90.00
b = 97.300β = 90.00
c = 129.500γ = 90.00
Software Package:
Software NamePurpose
PROLSQrefinement
X-PLORrefinement
X-PLORmodel building
X-PLORphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 1994-05-24 
  • Released Date: 1994-09-30 
  • Deposition Author(s): Smith, T.J., Liu, H.

Revision History 

  • Version 1.0: 1994-09-30
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-11-29
    Type: Derived calculations, Other