3NAH | pdb_00003nah

Crystal structures and functional analysis of murine norovirus RNA-dependent RNA polymerase

PDB DOI: https://doi.org/10.2210/pdb3NAH/pdb

Classification: TRANSFERASE
Organism(s): Murine norovirus 1
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2010-06-02 Released: 2011-06-08
Deposition Author(s): Kim, K.H., Lee, J.H., Alam, I., Park, Y., Kang, S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.75 Å
R-Value Free:
0.303 (Depositor), 0.304 (DCC)
R-Value Work:
0.221 (Depositor), 0.222 (DCC)
R-Value Observed:
0.225 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 3NAH

This is version 1.3 of the entry. See complete history.

Literature

Crystal structures and functional analysis of murine norovirus RNA-dependent RNA polymerase

Kim, K.H., Lee, J.H., Alam, I., Park, Y., Kang, S.

To be published.

Macromolecule Content

Total Structure Weight: 175.85 kDa
Atom Count: 11,710
Modeled Residue Count: 1,456
Deposited Residue Count: 1,551
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA dependent RNA polymerase	A, B, C	517	Murine norovirus 1	Mutation(s): 0
UniProt
Find proteins for Q80J95 (Norovirus (isolate Mouse/NoV/United States/MNV1/2002/GV)) Explore Q80J95 Go to UniProtKB: Q80J95
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q80J95
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain E [auth B] SDF format, chain F [auth B] MOL2 format, chain D [auth A] MOL2 format, chain E [auth B] MOL2 format, chain F [auth B] mmCIF format, chain D [auth A] mmCIF format, chain E [auth B] mmCIF format, chain F [auth B]	D [auth A], E [auth B], F [auth B]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain D [auth A] Focus chain E [auth B] Focus chain F [auth B] Interactions & Density Focus chain D [auth A] Focus chain E [auth B] Focus chain F [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.75 Å
R-Value Free: 0.303 (Depositor), 0.304 (DCC)
R-Value Work: 0.221 (Depositor), 0.222 (DCC)
R-Value Observed: 0.225 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 120.833	α = 90
b = 196.543	β = 114.21
c = 109.156	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2011-06-08

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2011-06-08
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2017-11-08
Changes: Refinement description
Version 1.3: 2024-03-20
Changes: Data collection, Database references, Derived calculations

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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.