Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 47.18 kDa 
• Atom Count: 3534 
• Residue Count: 439 
• Unique protein chains: 2

1VGE

TR1.9 FAB FRAGMENT OF A HUMAN IGG1 KAPPA AUTOANTIBODY

• DOI: 10.2210/pdb1VGE/pdb

• Classification: IMMUNOGLOBULIN
• Organism(s): Homo sapiens
• Mutation(s): No 


• Deposited: 1996-01-04 Released: 1996-06-10 
• Deposition Author(s): Chacko, S., Padlan, E.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Work: 0.180 
• R-Value Observed: 0.180 

Literature

Structural studies of human autoantibodies. Crystal structure of a thyroid peroxidase autoantibody Fab.

Chacko, S., Padlan, E.A., Portolano, S., McLachlan, S.M., Rapoport, B.

(1996) J Biol Chem 271: 12191-12198

• PubMed: 8647813 
• DOI: 10.1074/jbc.271.21.12191
• Primary Citation of Related Structures:  
  1VGE


• PubMed Abstract: 
  

The three-dimensional structure of the Fab of TR1.9, a high-affinity IgG1, kappa human autoantibody to thyroid peroxidase, was determined crystallographically to a resolution of 2.0 A. The combining site was found to be relatively flat, like other antibodies to large proteins. Sequence differences from the most closely related germline genes mainly occur at positions occupied by residues with outward-pointing side chains. An increased deformability of the second and third complementarity-determining regions of the heavy chain may result from the replacement of two germline asparagines and the presence of several glycines, and may allow "induced fit" in the binding to antigen. Four exposed charged residues, resulting from the use of a particular D (diversity) and J (joining) segments in the assembly of the heavy chain, may contribute to the high affinity of antigen binding. The crystal structure of TR1.9 Fab is the first for a human IgG high-affinity autoantibody.

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Organizational Affiliation: 

Laboratory of Molecular Biology, NIDDK, National Institutes of Health, Bethesda, Maryland 20895-0560, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TR1.9 FAB	L	214	Homo sapiens	Mutation(s): 0  Gene Names: CDNA DERIVED FROM

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
TR1.9 FAB	H	225	Homo sapiens	Mutation(s): 0  Gene Names: CDNA DERIVED FROM, IGHG1
Find proteins for P01857 (Homo sapiens) Explore P01857  Go to UniProtKB:  P01857
NIH Common Fund Data Resources
PHAROS  P01857 GTEx  ENSG00000211896

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Work: 0.180 
• R-Value Observed: 0.180 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.926	α = 90
b = 62.776	β = 107.19
c = 84.79	γ = 90

Software Package:

Software Name	Purpose
XDS	data scaling
X-PLOR	refinement
XDS	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1996-01-04 
• Released Date: 1996-06-10 
Deposition Author(s): Chacko, S., Padlan, E.A.

Revision History 

• Version 1.0: 1996-06-10
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance