Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 71.46 kDa 
• Atom Count: 4685 
• Modelled Residue Count: 583 
• Deposited Residue Count: 625 
• Unique protein chains: 1

2F83

Crystal structure at 2.9 Angstroms resolution of human plasma coagulation factor XI zymogen

• PDB DOI: 10.2210/pdb2F83/pdb

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


• Deposited: 2005-12-01 Released: 2006-05-16 
• Deposition Author(s): Papagrigoriou, E., McEwan, P.A., Walsh, P.N., Emsley, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.87 Å
• R-Value Free: 0.281 
• R-Value Work: 0.235 
• R-Value Observed: 0.235 

Literature

Crystal structure of the factor XI zymogen reveals a pathway for transactivation.

Papagrigoriou, E., McEwan, P.A., Walsh, P.N., Emsley, J.

(2006) Nat Struct Mol Biol 13: 557-558

• PubMed: 16699514 
• DOI: 10.1038/nsmb1095
• Primary Citation of Related Structures:  
  2F83


• PubMed Abstract: 
  

Factor XI (FXI), a coagulation protein essential to normal hemostasis, circulates as a disulfide-linked dimer. Here we report the full-length FXI zymogen crystal structure, revealing that the protease and four apple domains assemble into a unique 'cup and saucer' architecture. The structure shows that the thrombin and platelet glycoprotein Ib binding sites are remote within the monomer but lie in close proximity across the dimer, suggesting a transactivation mechanism.

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Organizational Affiliation: 

Centre for Biomolecular Sciences, School of Pharmacy, University of Nottingham, Nottingham, NG72RD, UK.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Coagulation factor XI	A	625	Homo sapiens	Mutation(s): 0  Gene Names: F11 EC: 3.4.21.27
UniProt & NIH Common Fund Data Resources
Find proteins for P03951 (Homo sapiens) Explore P03951  Go to UniProtKB:  P03951
PHAROS:  P03951

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Chain Length	2D Diagram	Glycosylation
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	B	2		N/A
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	C [auth A], D [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
PT	E [auth A], F [auth A]	PLATINUM (II) ION Pt HRGDZIGMBDGFTC-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.87 Å
• R-Value Free: 0.281 
• R-Value Work: 0.235 
• R-Value Observed: 0.235 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 80.666	α = 90
b = 80.666	β = 90
c = 254.349	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
SCALEPACK	data scaling
SHARP	phasing
CNS	refinement
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2005-12-01 
• Released Date: 2006-05-16 
Deposition Author(s): Papagrigoriou, E., McEwan, P.A., Walsh, P.N., Emsley, J.

Revision History  

• Version 1.0: 2006-05-16
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary