Biological Assembly 1  

 3D View: Structure

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 166493.91 
• Atom Count: 11371 
• Residue Count: 1462 
• Unique protein chains: 1

1FIE

RECOMBINANT HUMAN COAGULATION FACTOR XIII

• DOI: 10.2210/pdb1FIE/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Saccharomyces cerevisiae


• Deposited: 1996-08-24 Released: 1997-02-12 
• Deposition Author(s): Yee, V.C., Teller, D.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.5 Å
• R-Value Work: 0.182 

Literature

Structural evidence that the activation peptide is not released upon thrombin cleavage of factor XIII.

Yee, V.C., Pedersen, L.C., Bishop, P.D., Stenkamp, R.E., Teller, D.C.

(1995) Thromb.Res. 78: 389-397

• PubMed: 7660355 


• PubMed Abstract: 
  

The three-dimensional structure of the recombinant human factor XIII a2 dimer after cleavage by thrombin has been determined by X-ray crystallography. Factor XIII zymogen was treated with bovine alpha-thrombin in the presence of 3 mM CaCl2, and the cleaved protein was crystallized from Tris buffered at pH 6.5 using ethanol as the precipitating agent. Refinement of the molecular model of thrombin-cleaved factor XIII against diffraction data from 10.0 to 2.5 A resolution has been carried out to give a crystallographic R factor of 18.2%. The structure of thrombin-cleaved factor XIII is remarkably similar to that of the zymogen: there are no large conformational changes in the protein and the 37 residue amino terminus activation peptide remains associated with the rest of the molecule. This work shows that the activation peptide, upon thrombin cleavage, has the same conformation and occupies the same position with respect to the rest of the molecule as it does in the zymogen structure.

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Related Citations: 

• Transglutaminase Factor Xiii Uses Proteinase-Like Catalytic Triad to Crosslink Macromolecules
  Pedersen, L.C.,Yee, V.C.,Bishop, P.D.,Le Trong, I.,Teller, D.C.,Stenkamp, R.E.
  (1994) Protein Sci. 3: 1131
• Expression, Purification, and Characterization of Human Factor Xiii in Saccharomyces Cerevisiae
  Bishop, P.D.,Teller, D.C.,Smith, R.A.,Lasser, G.W.,Gilbert, T.,Seale, R.L.
  (1990) Biochemistry 29: 1861
• Three-Dimensional Structure of a Transglutaminase: Human Blood Coagulation Factor Xiii
  Yee, V.C.,Pedersen, L.C.,Le Trong, I.,Bishop, P.D.,Stenkamp, R.E.,Teller, D.C.
  (1994) Proc.Natl.Acad.Sci.USA 91: 7296




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Organizational Affiliation: 

Department of Biochemistry, University of Washington, Seattle 98195, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
COAGULATION FACTOR XIII	A, B	731	Homo sapiens	Mutation(s): 0  Gene Names: F13A1 (F13A) EC: 2.3.2.13
Find proteins for P00488 (Homo sapiens) Go to Gene View: F13A1 Go to UniProtKB:  P00488

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.5 Å
• R-Value Work: 0.182 
• Space Group: P 1 2₁ 1

Unit Cell:

Length (Å)	Angle (°)
a = 101.100	α = 90.00
b = 73.130	β = 106.40
c = 134.700	γ = 90.00

Software Package:

Software Name	Purpose
X-PLOR	model building
R-AXIS	data scaling
X-PLOR	phasing
R-AXIS	data reduction
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1996-08-24 
• Released Date: 1997-02-12 
• Deposition Author(s): Yee, V.C., Teller, D.C.

Revision History 

• Version 1.0: 1997-02-12
  Type: Initial release
• Version 1.1: 2008-03-24
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance