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), 0.175 (DCC)
R-Value Work:
0.148 (Depositor), 0.150 (DCC)
R-Value Observed:
0.149 (Depositor)

wwPDB Validation 3D Report Full Report

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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:

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% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% 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), 0.175 (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

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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

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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.