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), 0.271 (DCC)
R-Value Work:
0.220 (Depositor), 0.218 (DCC)
R-Value Observed:
0.223 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 8WQK

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:

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% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% 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), 0.271 (DCC)
R-Value Work: 0.220 (Depositor), 0.218 (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

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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

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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.