Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - ABCD 

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

Macromolecule Content

• Total Structure Weight: 70003.48 
• Atom Count: 4732 
• Residue Count: 607 
• Unique protein chains: 4

1DAN

Complex of active site inhibited human blood coagulation factor VIIA with human recombinant soluble tissue factor

• DOI: 10.2210/pdb1DAN/pdb

• Classification: HYDROLASE/HYDROLASE INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Escherichia coli, Mesocricetus auratus


• Deposited: 1997-03-05 Released: 1997-09-04 
• Deposition Author(s): Banner, D.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2 Å
• R-Value Free: 0.218 
• R-Value Work: 0.187 

Literature

The crystal structure of the complex of blood coagulation factor VIIa with soluble tissue factor.

Banner, D.W., D'Arcy, A., Chene, C., Winkler, F.K., Guha, A., Konigsberg, W.H., Nemerson, Y., Kirchhofer, D.

(1996) Nature 380: 41-46

• PubMed: 8598903 
• DOI: 10.1038/380041a0
• Also Cited By: 1W0Y


• PubMed Abstract: 
  

Blood coagulation is initiated when tissue factor binds to coagulation factor VIIa to give an enzymatically active complex which then activates factors IX and X, leading to thrombin generation and clot formation. We have determined the crystal structure at 2.0-A degrees resolution of active-site-inhibited factor VIIa complexed with the cleaved extracellular domain of tissue factor. In the complex, factor VIIa adopts an extended conformation. This structure provides a basis for understanding many molecular aspects of the initiation of coagulation.

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Organizational Affiliation: 

Pharma Division, F. Hoffmann-La Roche, Basle, Switzerland.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
BLOOD COAGULATION FACTOR VIIA light chain	L	152	Homo sapiens	Mutation(s): 0  Gene Names: F7 EC: 3.4.21.21
Find proteins for P08709 (Homo sapiens) Go to Gene View: F7 Go to UniProtKB:  P08709

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
BLOOD COAGULATION FACTOR VIIA heavy chain	H	254	Homo sapiens	Mutation(s): 0  Gene Names: F7 EC: 3.4.21.21
Find proteins for P08709 (Homo sapiens) Go to Gene View: F7 Go to UniProtKB:  P08709

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
SOLUBLE TISSUE FACTOR	T	80	Homo sapiens	Mutation(s): 0  Gene Names: F3
Find proteins for P13726 (Homo sapiens) Go to Gene View: F3 Go to UniProtKB:  P13726

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details
SOLUBLE TISSUE FACTOR	U	121	Homo sapiens	Mutation(s): 0  Gene Names: F3
Find proteins for P13726 (Homo sapiens) Go to Gene View: F3 Go to UniProtKB:  P13726

Small Molecules

Ligands 6 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
0Z6	H	D-phenylalanyl-N-[(2S,3S)-6-{[amino(iminio)methyl]amino}-1-chloro-2-hydroxyhexan-3-yl]-L-phenylalaninamide FFRCK C25 H36 Cl N6 O3 ZKHBINZTIMXMQW-CLAROIROSA-O
CL	H	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
CA	H, L	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
BGC	L	BETA-D-GLUCOSE C6 H12 O6 WQZGKKKJIJFFOK-VFUOTHLCSA-N
FUC	L	ALPHA-L-FUCOSE C6 H12 O5 SHZGCJCMOBCMKK-SXUWKVJYSA-N
CAC	H	CACODYLATE ION dimethylarsinate C2 H6 As O2 OGGXGZAMXPVRFZ-UHFFFAOYSA-M

Biologically Interesting Molecules 1 Unique
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_000369 (0Z6)	H	D-Phe-Phe-Arg Chloromethylketone	Peptide-like / Inhibitor		--

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CGU	L	L-PEPTIDE LINKING	C6 H9 N O6		GLU

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2 Å
• R-Value Free: 0.218 
• R-Value Work: 0.187 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 70.650	α = 90.00
b = 82.550	β = 90.00
c = 126.500	γ = 90.00

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1997-03-05 
• Released Date: 1997-09-04 
• Deposition Author(s): Banner, D.W.

Revision History 

• Version 1.0: 1997-09-04
  Type: Initial release
• Version 1.1: 2008-03-10
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Atomic model, Database references, Derived calculations, Non-polymer description, Structure summary, Version format compliance
• Version 1.3: 2012-12-12
  Type: Other