5TSK | pdb_00005tsk

Molecular Dynamics Flexible Fitting Model of Coxsackievirus A16 empty Procapsid VP1 Subunit

PDB DOI: https://doi.org/10.2210/pdb5TSK/pdb
EM Map EMD-8325: EMDB EMDataResource

Classification: VIRUS
Organism(s): Coxsackievirus A16
Mutation(s): No

Deposited: 2016-10-29 Released: 2017-02-01
Deposition Author(s): Fan, C., Cong, Y., Ye, X., Huang, Z.

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 6.50 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Structural alteration and surface modifi cation of coxsackievirus A16 capsids by beta-propiolactone treatment

Chen, F., Ye, X., Ku, Z.I., Kong, L.l., Liu, Q., Xu, C., Cong, Y., Huang, Z.

(2017) J Virol

Macromolecule Content

Total Structure Weight: 33.09 kDa
Atom Count: 1,752
Modeled Residue Count: 219
Deposited Residue Count: 297
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
coxsackievirus A16 empty procapsid VP1 subunit	A	297	Coxsackievirus A16	Mutation(s): 0
UniProt
Find proteins for A9LXZ4 (Coxsackievirus A16) Explore A9LXZ4 Go to UniProtKB: A9LXZ4
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A9LXZ4
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 6.50 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	jspr
MODEL REFINEMENT	NAMD	2.1

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2017-02-01

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2017-02-01
Type: Initial release
Version 1.1: 2019-10-23
Changes: Data collection, Other
Version 1.2: 2019-12-11
Changes: Experimental preparation
Version 1.3: 2024-03-20
Changes: Data collection, Database references, Derived calculations, Refinement description

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.