Biological Assembly 1  

 3D View: Structure | Electron Density

Pseudo Symmetry: Cyclic - C2  (3D View)
Pseudo Stoichiometry: Homo 2-mer - A2 Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Biological Assembly 2  

 3D View: Structure | Electron Density

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 Pseudo Symmetry: Cyclic - C2  (3D View)
Pseudo Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 94.60 kDa 
• Atom Count: 6890 
• Residue Count: 868 
• Unique protein chains: 2

1A4J

DIELS ALDER CATALYTIC ANTIBODY GERMLINE PRECURSOR

• DOI: 10.2210/pdb1A4J/pdb

• Classification: IMMUNOGLOBULIN
• Organism(s): Mus musculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1998-01-30 Released: 1998-05-13 
• Deposition Author(s): Spiller, B.W., Romesburg, F.E., Schultz, P.G., Stevens, R.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.292 
• R-Value Work: 0.229 
• R-Value Observed: 0.229 

Literature

Immunological origins of binding and catalysis in a Diels-Alderase antibody.

Romesberg, F.E., Spiller, B., Schultz, P.G., Stevens, R.C.

(1998) Science 279: 1929-1933

• PubMed: 9506942 
• DOI: 10.1126/science.279.5358.1929
• Primary Citation of Related Structures:  
  1A4K, 1A4J


• PubMed Abstract: 
  

The three-dimensional structure of an antibody (39-A11) that catalyzes a Diels-Alder reaction has been determined. The structure suggests that the antibody catalyzes this pericyclic reaction through a combination of packing and hydrogen-bonding interactions that control the relative geometries of the bound substrates and electronic distribution in the dienophile. A single somatic mutation, serine-91 of the light chain to valine, is largely responsible for the increase in affinity and catalytic activity of the affinity-matured antibody. Structural and functional studies of the germ-line precursor suggest that 39-A11 and related antibodies derive from a family of germ-line genes that have been selected throughout evolution for the ability of the encoded proteins to form a polyspecific combining site. Germ line-encoded antibodies of this type, which can rapidly evolve into high-affinity receptors for a broad range of structures, may help to expand the binding potential associated with the structural diversity of the primary antibody repertoire.

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Organizational Affiliation: 

Howard Hughes Medical Institute and the Department of Chemistry, University of California, Berkeley, CA 94720, USA. 94720, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
IMMUNOGLOBULIN, DIELS ALDER CATALYTIC ANTIBODY (LIGHT CHAIN)	A, L	217	Mus musculus	Mutation(s): 0
Find proteins for P01834 (Homo sapiens) Explore P01834  Go to UniProtKB:  P01834
NIH Common Fund Data Resources
PHAROS:  P01834

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
IMMUNOGLOBULIN, DIELS ALDER CATALYTIC ANTIBODY (HEAVY CHAIN)	B, H	219	Mus musculus	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.292 
• R-Value Work: 0.229 
• R-Value Observed: 0.229 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 158.9	α = 90
b = 49.33	β = 108.74
c = 145	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	model building
X-PLOR	refinement
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1998-01-30 
• Released Date: 1998-05-13 
Deposition Author(s): Spiller, B.W., Romesburg, F.E., Schultz, P.G., Stevens, R.C.

Revision History 

• Version 1.0: 1998-05-13
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance