4GQH

The Conformations and Interactions of the Four-Layer Aggregate Revealed by X-ray Crystallography Diffraction Implied the Importance of Peptides at Opposite Ends in Their Assemblies

PDB DOI: https://doi.org/10.2210/pdb4GQH/pdb

Classification: VIRAL PROTEIN
Organism(s): Tobacco mosaic virus (vulgare)
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2012-08-23 Released: 2013-08-28
Deposition Author(s): Li, X.Y., Song, B.A., Hu, D.Y., Chen, X., Wang, Z.C., Zeng, M.J., Yu, D.D., Chen, Z., Jin, L.H., Yang, S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.06 Å
R-Value Free:
0.255 (Depositor), 0.250 (DCC)
R-Value Work:
0.204 (Depositor), 0.200 (DCC)
R-Value Observed:
0.206 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

The Conformations and Interactions of the Four-Layer Aggregate Revealed by X-ray Crystallography Diffraction Implied the Importance of Peptides at Opposite Ends in Their Assemblies

Li, X.Y., Song, B.A., Hu, D.Y., Chen, X., Wang, Z.C., Zeng, M.J., Yu, D.D., Chen, Z., Jin, L.H., Yang, S.

To be published.

Macromolecule Content

Total Structure Weight: 657.92 kDa
Atom Count: 36,918
Modelled Residue Count: 4,690
Deposited Residue Count: 5,916
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein	A AA [auth a] B BA [auth b] C A, AA [auth a], B, BA [auth b], C, CA [auth c], D, DA [auth d], E, EA [auth e], F, FA [auth f], G, GA [auth h], H, HA [auth i], I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z	174	Tobacco mosaic virus (vulgare)	Mutation(s): 0 Gene Names: CP
UniProt
Find proteins for P69687 (Tobacco mosaic virus (strain vulgare)) Explore P69687 Go to UniProtKB: P69687
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P69687
Sequence Annotations Expand
Reference Sequence LOADING

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.06 Å
R-Value Free: 0.255 (Depositor), 0.250 (DCC)
R-Value Work: 0.204 (Depositor), 0.200 (DCC)
R-Value Observed: 0.206 (Depositor)

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 173.072	α = 90
b = 221.675	β = 90
c = 225.609	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2013-08-28

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2013-08-28
Type: Initial release
Version 1.1: 2024-03-20
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.