4OPV | pdb_00004opv

Unliganded crystal structure of P domain from norovirus strain Farmington Hills 2004 co-crystallized with HBGA type Lea

PDB DOI: https://doi.org/10.2210/pdb4OPV/pdb

Classification: VIRAL PROTEIN
Organism(s): Norovirus Hu/GII.4/Farmington Hills/2004/USA
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2014-02-06 Released: 2015-06-17
Deposition Author(s): Singh, B.K., Leuthold, M.M., Hansman, G.S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.85 Å
R-Value Free:
0.175 (Depositor), 0.180 (DCC)
R-Value Work:
0.148 (Depositor), 0.150 (DCC)
R-Value Observed:
0.149 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Unliganded crystal structure of P domain from norovirus strain Farmington Hills 2004 co-crystallized with HBGA type Lea

Singh, B.K., Leuthold, M.M., Hansman, G.S.

To be published.

Macromolecule Content

Total Structure Weight: 67.57 kDa
Atom Count: 5,377
Modeled Residue Count: 613
Deposited Residue Count: 614
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Major capsid protein	A, B	307	Norovirus Hu/GII.4/Farmington Hills/2004/USA	Mutation(s): 0 Gene Names: JQ478408
UniProt
Find proteins for R4I4P2 (Norovirus Hu/GII.4/Farmington Hills/2004/USA) Explore R4I4P2 Go to UniProtKB: R4I4P2
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	R4I4P2
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.85 Å
R-Value Free: 0.175 (Depositor), 0.180 (DCC)
R-Value Work: 0.148 (Depositor), 0.150 (DCC)
R-Value Observed: 0.149 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.13	α = 90
b = 90.15	β = 90
c = 109.48	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data scaling
XDS	data reduction

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2015-06-17

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2015-06-17
Type: Initial release
Version 1.1: 2024-02-28
Changes: Data collection, Database references

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.