8WQK | pdb_00008wqk

Crystal structure of the C-terminal domain of PEDV nucleocapsid protein

PDB DOI: https://doi.org/10.2210/pdb8WQK/pdb

Classification: VIRAL PROTEIN
Organism(s): Porcine epidemic diarrhea virus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-10-11 Released: 2024-10-16
Deposition Author(s): Zhang, J.T., Jiao, Z., Liang, R., Shi, Y.J., Peng, G.Q.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.88 Å
R-Value Free:
0.275 (Depositor), 0.268 (DCC)
R-Value Work:
0.220 (Depositor), 0.219 (DCC)
R-Value Observed:
0.223 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Crystal structure of the C-terminal domain of PEDV nucleocapsid protein

Zhang, J.T., Jiao, Z., Liang, R., Shi, Y.J., Peng, G.Q.

To be published.

Macromolecule Content

Total Structure Weight: 101.63 kDa
Atom Count: 6,192
Modeled Residue Count: 800
Deposited Residue Count: 912
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleoprotein	A, B, C, D, E A, B, C, D, E, F, G, H	114	Porcine epidemic diarrhea virus	Mutation(s): 0
UniProt
Find proteins for Q07499 (Porcine epidemic diarrhea virus (strain CV777)) Explore Q07499 Go to UniProtKB: Q07499
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q07499
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.88 Å
R-Value Free: 0.275 (Depositor), 0.268 (DCC)
R-Value Work: 0.220 (Depositor), 0.219 (DCC)
R-Value Observed: 0.223 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.92	α = 90
b = 93.502	β = 97.37
c = 97.2	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data scaling
autoPROC	data reduction
PHENIX	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2024-10-16

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History (Full details and data files)

Version 1.0: 2024-10-16
Type: Initial release

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.