8CO8 | pdb_00008co8

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 (Depositor), 0.217 (DCC)
R-Value Work:
0.219 (Depositor)
R-Value Observed:
0.222 (Depositor)

Starting Model: experimental
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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
Modeled Residue Count: 203
Deposited Residue Count: 245
Unique protein chains: 1

Macromolecules

Find similar proteins by:

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% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% 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 (Depositor), 0.217 (DCC)
R-Value Work: 0.219 (Depositor)
R-Value Observed: 0.222 (Depositor)

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

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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

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.