7FAB

CRYSTAL STRUCTURE OF HUMAN IMMUNOGLOBULIN FRAGMENT FAB NEW REFINED AT 2.0 ANGSTROMS RESOLUTION


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Work: 0.169 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Crystal structure of human immunoglobulin fragment Fab New refined at 2.0 A resolution.

Saul, F.A.Poljak, R.J.

(1992) Proteins 14: 363-371

  • DOI: 10.1002/prot.340140305

  • PubMed Abstract: 
  • The three-dimensional structure of the human immunoglobulin fragment Fab New (IgG1, lambda) has been refined to a crystallographic R-factor of 16.9% to 2 A resolution. Rms deviations of the final model from ideal geometry are 0.014 A for bond distanc ...

    The three-dimensional structure of the human immunoglobulin fragment Fab New (IgG1, lambda) has been refined to a crystallographic R-factor of 16.9% to 2 A resolution. Rms deviations of the final model from ideal geometry are 0.014 A for bond distances and 3.03 degrees for bond angles. Refinement was based on a new X-ray data set including 28,301 reflections with F > 2.5 sigma(F) from 6.0 to 2.0 A resolution. The starting model for the refinement procedure reported here is from the Brookhaven Protein Data Bank entry 3FAB (rev. 1981). Differences between the initial and final models include modified polypeptide-chain folding in the third complementarity-determining region (CDR3) and the third framework region (FR3) of VH and in some exposed loops of CL and CH1. Amino acid sequence changes were determined at a number of positions by inspection of difference electron density maps. The incorporation of amino acid sequence changes results in an improved VH framework model for the "humanization" of monoclonal antibodies.


    Related Citations: 
    • Preliminary Refinement and Structural Analysis of the Fab Fragment from Human Immunoglobulin New at 2.0 Angstroms Resolution
      Saul, F.A.,Amzel, L.M.,Poljak, R.J.
      (1978) J.Biol.Chem. 253: 585


    Organizational Affiliation

    D├ępartement d'Immunologie, Institut Pasteur, Paris, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
IGG1-LAMBDA NEW FAB (LIGHT CHAIN)
L
208Homo sapiensGene Names: IGLC3
Find proteins for P0DOY3 (Homo sapiens)
Go to UniProtKB:  P0DOY3
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
IGG1-LAMBDA NEW FAB (HEAVY CHAIN)
H
217Homo sapiensN/A
Find proteins for P01825 (Homo sapiens)
Go to UniProtKB:  P01825
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Work: 0.169 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 111.430α = 90.00
b = 56.680β = 116.46
c = 90.300γ = 90.00
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORphasing
X-PLORrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 1991-11-20 
  • Released Date: 1994-01-31 
  • Deposition Author(s): Saul, F., Poljak, R.J.
  • This entry supersedes: 3FAB

Revision History 

  • Version 1.0: 1994-01-31
    Type: Initial release
  • Version 1.1: 2008-03-25
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2013-07-24
    Type: Database references, Structure summary