Biological Assembly 1  

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - AB 

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

Macromolecule Content

• Total Structure Weight: 35392.29 
• Atom Count: 2467 
• Residue Count: 309 
• Unique protein chains: 2

4JZE

Structure of factor VIIA in complex with the inhibitor 2-{2-[(1-aminoisoquinolin-6-yl)carbamoyl]-6-methoxypyridin-3-yl}-5-{[(2S)-1-hydroxy-3,3-dimethylbutan-2-yl]carbamoyl}benzoic acid

• DOI: 10.2210/pdb4JZE/pdb

• Classification: HYDROLASE/HYDROLASE INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Cricetinae


• Deposited: 2013-04-02 Released: 2013-08-21 
• Deposition Author(s): Wei, A., Anumula, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.52 Å
• R-Value Free: 0.210 
• R-Value Work: 0.196 

Literature

Discovery of nonbenzamidine factor VIIa inhibitors using a biaryl acid scaffold.

Bolton, S.A., Sutton, J.C., Anumula, R., Bisacchi, G.S., Jacobson, B., Slusarchyk, W.A., Treuner, U.D., Wu, S.C., Zhao, G., Pi, Z., Sheriff, S., Smirk, R.A., Bisaha, S., Cheney, D.L., Wei, A., Schumacher, W.A., Hartl, K.S., Liu, E., Zahler, R., Seiler, S.M.

(2013) Bioorg.Med.Chem.Lett. 23: 5239-5243

• PubMed: 23927973 
• DOI: 10.1016/j.bmcl.2013.06.028
• Primary Citation of Related Structures:  
  4JZF, 4JZD


• PubMed Abstract: 
  

In this Letter, we describe the synthesis of several nonamidine analogs of biaryl acid factor VIIa inhibitor 1 containing weakly basic or nonbasic P1 groups. 2-Aminoisoquinoline was found to be an excellent surrogate for the benzamidine group (compound 2) wherein potent inhibition of factor VIIa is maintained relative to most other related serine proteases. In an unanticipated result, the m-benzamide P1 (compounds 21a and 21b) proved to be a viable benzamidine replacement, albeit with a 20-40 fold loss in potency against factor VIIa.

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Organizational Affiliation: 

Bristol-Myers Squibb Research & Development, Hopewell, NJ 08534-5400, USA. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
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: 2
Molecule	Chains	Sequence Length	Organism	Details
Factor VIIa (Light Chain)	L	55	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

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
SO4	H	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	H	GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
CA	H	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
1NK	H	2-{2-[(1-aminoisoquinolin-6-yl)carbamoyl]-6-methoxypyridin-3-yl}-5-{[(2S)-1-hydroxy-3,3-dimethylbutan-2-yl]carbamoyl}benzoic acid C30 H31 N5 O6 GCBXPOHPNDVIFD-HSZRJFAPSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
1NK	IC50: 7 nM (100) BINDINGDB
1NK	IC50: 7 nM BINDINGMOAD
1NK	IC50: 7 nM PDBBIND

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.52 Å
• R-Value Free: 0.210 
• R-Value Work: 0.196 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length (Å)	Angle (°)
a = 94.900	α = 90.00
b = 94.900	β = 90.00
c = 115.400	γ = 90.00

Software Package:

Software Name	Purpose
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling
BUSTER	refinement
BUSTER-TNT	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-04-02 
• Released Date: 2013-08-21 
• Deposition Author(s): Wei, A., Anumula, R.

Revision History 

• Version 1.0: 2013-08-21
  Type: Initial release
• Version 1.1: 2013-09-04
  Type: Database references