4XDE

Coagulation Factor XII protease domain crystal structure

• PDB DOI: https://doi.org/10.2210/pdb4XDE/pdb

• Classification: BLOOD CLOTTING
• Organism(s): Homo sapiens
• Expression System: Drosophila melanogaster
• Mutation(s): Yes 


• Deposited: 2014-12-19 Released: 2015-02-04 
• Deposition Author(s): Pathak, M., Wilmann, P., Awford, J., Li, C., Fisher, P.M., Dreveny, I., Dekker, L.V., Emsley, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.14 Å
• R-Value Free: 0.262 
• R-Value Work: 0.222 
• R-Value Observed: 0.224 

Literature

Coagulation factor XII protease domain crystal structure.

Pathak, M., Wilmann, P., Awford, J., Li, C., Hamad, B.K., Fischer, P.M., Dreveny, I., Dekker, L.V., Emsley, J.

(2015) J Thromb Haemost 13: 580-591

• PubMed: 25604127 
• DOI: https://doi.org/10.1111/jth.12849
• Primary Citation of Related Structures:  
  4XDE, 4XE4


• PubMed Abstract: 
  

  Coagulation factor XII is a serine protease that is important for kinin generation and blood coagulation, cleaving the substrates plasma kallikrein and FXI.

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Organizational Affiliation: 

Centre for Biomolecular Sciences, School of Pharmacy, University of Nottingham, Nottingham, UK.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content

• Total Structure Weight: 28.19 kDa 
• Atom Count: 1,947 
• Modelled Residue Count: 241 
• Deposited Residue Count: 257 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Coagulation factor XII	A	257	Homo sapiens	Mutation(s): 1  Gene Names: F12 EC: 3.4.21.38
UniProt & NIH Common Fund Data Resources
Find proteins for P00748 (Homo sapiens) Explore P00748  Go to UniProtKB:  P00748
PHAROS:  P00748 GTEx:  ENSG00000131187

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FLC	D [auth A]	CITRATE ANION C6 H5 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-K
IPA	B [auth A], C [auth A]	ISOPROPYL ALCOHOL C3 H8 O KFZMGEQAYNKOFK-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.14 Å
• R-Value Free: 0.262 
• R-Value Work: 0.222 
• R-Value Observed: 0.224 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 124.126	α = 90
b = 124.126	β = 90
c = 38.145	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2015-02-04 
Deposition Author(s): Pathak, M., Wilmann, P., Awford, J., Li, C., Fisher, P.M., Dreveny, I., Dekker, L.V., Emsley, J.

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Funding Organization	Location	Grant Number
	United Kingdom	--

Revision History  

• Version 1.0: 2015-02-04
  Type: Initial release
  
• Version 1.1: 2015-04-15
  Changes: Database references
• Version 1.2: 2015-10-28
  Changes: Database references
• Version 1.3: 2024-01-10
  Changes: Data collection, Database references, Refinement description