Biological Assembly 1  

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - ABC 

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

Macromolecule Content

• Total Structure Weight: 33512.57 
• Atom Count: 2023 
• Residue Count: 308 
• Unique protein chains: 3

2IJO

Crystal Structure of the West Nile virus NS2B-NS3 protease complexed with bovine pancreatic trypsin inhibitor

• DOI: 10.2210/pdb2IJO/pdb

• Classification: HYDROLASE/HYDROLASE INHIBITOR
• Organism(s): Bos taurus, West Nile virus
• Expression System: Escherichia coli
• Mutation(s): 1 


• Deposited: 2006-09-29 Released: 2007-05-15 
• Deposition Author(s): Aleshin, A.E., Shiryaev, S.A., Strongin, A.Y., Liddington, R.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.3 Å
• R-Value Free: 0.264 
• R-Value Work: 0.212 

Literature

Structural evidence for regulation and specificity of flaviviral proteases and evolution of the Flaviviridae fold.

Aleshin, A.E., Shiryaev, S.A., Strongin, A.Y., Liddington, R.C.

(2007) Protein Sci. 16: 795-806

• PubMed: 17400917 
• DOI: 10.1110/ps.072753207
• Primary Citation of Related Structures:  
  2GGV


• PubMed Abstract: 
  

Pathogenic members of the flavivirus family, including West Nile Virus (WNV) and Dengue Virus (DV), are growing global threats for which there are no specific treatments. The two-component flaviviral enzyme NS2B-NS3 cleaves the viral polyprotein precursor within the host cell, a process that is required for viral replication. Here, we report the crystal structure of WNV NS2B-NS3pro both in a substrate-free form and in complex with the trypsin inhibitor aprotinin/BPTI. We show that aprotinin binds in a substrate-mimetic fashion in which the productive conformation of the protease is fully formed, providing evidence for an "induced fit" mechanism of catalysis and allowing us to rationalize the distinct substrate specificities of WNV and DV proteases. We also show that the NS2B cofactor of WNV can adopt two very distinct conformations and that this is likely to be a general feature of flaviviral proteases, providing further opportunities for regulation. Finally, by comparing the flaviviral proteases with the more distantly related Hepatitis C virus, we provide insights into the evolution of the Flaviviridae fold. Our work should expedite the design of protease inhibitors to treat a range of flaviviral infections.

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Organizational Affiliation: 

Infectious and Inflammatory Disease Center, Burnham Institute for Medical Research, La Jolla, California 92037, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Polyprotein	A	58	West Nile virus	Mutation(s): 0
Find proteins for P06935 (West Nile virus) Go to UniProtKB:  P06935

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Polyprotein	B	192	West Nile virus	Mutation(s): 1
Find proteins for P06935 (West Nile virus) Go to UniProtKB:  P06935

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
Pancreatic trypsin inhibitor	I	58	Bos taurus	Mutation(s): 0
Find proteins for P00974 (Bos taurus) Go to UniProtKB:  P00974

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.3 Å
• R-Value Free: 0.264 
• R-Value Work: 0.212 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 46.050	α = 90.00
b = 72.177	β = 90.00
c = 79.417	γ = 90.00

Software Package:

Software Name	Purpose
CNS	refinement
SCALEPACK	data scaling
PDB_EXTRACT	data extraction
PHASER	phasing
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2006-09-29 
• Released Date: 2007-05-15 
• Deposition Author(s): Aleshin, A.E., Shiryaev, S.A., Strongin, A.Y., Liddington, R.C.

Revision History 

• Version 1.0: 2007-05-15
  Type: Initial release
• Version 1.1: 2008-05-01
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance