Biological Assembly 1  

 3D View: Structure

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 166.47 kDa 
• Atom Count: 11382 
• Residue Count: 1418 
• Unique protein chains: 1

1GGT

THREE-DIMENSIONAL STRUCTURE OF A TRANSGLUTAMINASE: HUMAN BLOOD COAGULATION FACTOR XIII

• DOI: 10.2210/pdb1GGT/pdb

• Classification: BLOOD COAGULATION
• Organism(s): Homo sapiens
• Mutation(s): No 


• Deposited: 1994-01-25 Released: 1995-07-31 
• Deposition Author(s): Yee, V.C., Pedersen, L.C., Trong, I.L., Bishop, P.D., Stenkamp, R.E., Teller, D.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Work: 0.216 
• R-Value Observed: 0.216 

Literature

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 U S A 91: 7296-7300

• PubMed: 7913750 
• DOI: 10.1073/pnas.91.15.7296
• Primary Citation of Related Structures:  
  1GGT


• PubMed Abstract: 
  

Mechanical stability in many biological materials is provided by the crosslinking of large structural proteins with gamma-glutamyl-epsilon-lysyl amide bonds. The three-dimensional structure of human recombinant factor XIII (EC 2.3.2.13 zymogen; protein-glutamine:amine gamma-glutamyltransferase a chain), a transglutaminase zymogen, has been solved at 2.8-A resolution by x-ray crystallography. This structure shows that each chain of the homodimeric protein is folded into four sequential domains. A catalytic triad reminiscent of that observed in cysteine proteases has been identified in the core domain. The amino-terminal activation peptide of each subunit crosses the dimer interface and partially occludes the opening of the catalytic cavity in the second subunit, preventing substrate binding to the zymogen. A proposal for the mechanism of activation by thrombin and calcium is made that details the structural events leading to active factor XIIIa'.

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Related Citations: 

• The Catalytic Triad and Proposed Mechanism of Transglutaminases Based on the Crystal Structure of Factor Xiii
  Pedersen, L.C., Yee, V.C., Trong, I.L., Bishop, P.D., Teller, D.C., Stenkamp, R.E.
  (1994) Protein Sci 3: 1131

• Human Recombinant Factor Xiii from Saccharomyces Cerevisiae: Crystallization and Preliminary X-Ray Data
  Bishop, P.D., Lasser, G.W., Trong, I.L., Stenkamp, R.E., Teller, D.C.
  (1990) J Biol Chem 23: 13888

• 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

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Organizational Affiliation: 

Department of Biochemistry, University of Washington, Seattle 98195.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
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) Explore P00488  Go to UniProtKB:  P00488
NIH Common Fund Data Resources
PHAROS:  P00488 GTEx:  ENSG00000124491

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Work: 0.216 
• R-Value Observed: 0.216 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 101.2	α = 90
b = 182.7	β = 90
c = 93.4	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1994-01-25 
• Released Date: 1995-07-31 
Deposition Author(s): Yee, V.C., Pedersen, L.C., Trong, I.L., Bishop, P.D., Stenkamp, R.E., Teller, D.C.

Revision History 

• Version 1.0: 1995-07-31
  Type: Initial release
  
• Version 1.1: 2008-03-03
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-11-29
  Changes: Derived calculations, Other