8CO8

Structure of West Nile Virus NS2B-NS3 protease

PDB DOI: https://doi.org/10.2210/pdb8CO8/pdb

Classification: ANTIVIRAL PROTEIN
Organism(s): West Nile virus
Expression System: Escherichia coli BL21
Mutation(s): Yes

Deposited: 2023-02-27 Released: 2023-09-06
Deposition Author(s): Fairhead, M., Godoy, A.S., Koekemoer, L., Balcomb, B.H., Lithgo, R.M., Aschenbrenner, J.C., Marples, P.G., Ni, X., Tomlinson, C.W.E., Wild, C., Fearon, D., Walsh, M.A., von Delft, F.
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.91 Å
R-Value Free: 0.250
R-Value Work: 0.219
R-Value Observed: 0.222

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Structure of West Nile Virus NS2B-NS3 protease - to be published

Fairhead, M., Godoy, A.S., Balcomb, B.H., von Delft, F.

To be published.

Macromolecule Content

Total Structure Weight: 26.36 kDa
Atom Count: 1,602
Modelled Residue Count: 203
Deposited Residue Count: 245
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine protease subunit NS2B,Serine protease/Helicase NS3	A	245	West Nile virus	Mutation(s): 1 Gene Names: GP1, MZ11_60484gpGP1, MZ11_60553gpGP1 EC: 3.4.21.91 (PDB Primary Data), 3.6.1.15 (PDB Primary Data), 3.6.4.13 (PDB Primary Data)
UniProt
Find proteins for Q9Q6P4 (West Nile virus (strain NY-99)) Explore Q9Q6P4 Go to UniProtKB: Q9Q6P4
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9Q6P4
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.91 Å
R-Value Free: 0.250
R-Value Work: 0.219
R-Value Observed: 0.222
Space Group: P 6₄

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.895	α = 90
b = 56.895	β = 90
c = 103.902	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
xia2	data reduction
xia2	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-09-06

Deposition Author(s):

Aschenbrenner, J.C.

Tomlinson, C.W.E.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	U19AI171399

Revision History (Full details and data files)

Version 1.0: 2023-09-06
Type: Initial release

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.