7ZU3 | pdb_00007zu3

Crystal Structure of Human Parechovirus 1 2A protein lacking the C-terminal oligomerisation helix

PDB DOI: https://doi.org/10.2210/pdb7ZU3/pdb

Classification: VIRAL PROTEIN
Organism(s): parechovirus A1
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2022-05-11 Released: 2023-05-24
Deposition Author(s): von Castelmur, E., Perrakis, A.
Funding Organization(s): Netherlands Organisation for Scientific Research (NWO)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.74 Å
R-Value Free:
0.226 (Depositor), 0.240 (DCC)
R-Value Work:
0.199 (Depositor), 0.210 (DCC)

wwPDB Validation 3D Report Full Report

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

Literature

Human Parechovirus 1 2A protein

von Castelmur, E., Perrakis, A.

To be published.

Macromolecule Content

Total Structure Weight: 15.03 kDa
Atom Count: 1,051
Modeled Residue Count: 126
Deposited Residue Count: 132
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein 2A	A	132	parechovirus A1	Mutation(s): 0
UniProt
Find proteins for Q66578 (Human parechovirus 1 (strain Harris)) Explore Q66578 Go to UniProtKB: Q66578
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q66578
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.74 Å
R-Value Free: 0.226 (Depositor), 0.240 (DCC)
R-Value Work: 0.199 (Depositor), 0.210 (DCC)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.692	α = 90
b = 71.666	β = 97.104
c = 32.704	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHENIX	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-05-24

Deposition Author(s):

von Castelmur, E.

Funding Organization	Location	Grant Number
Netherlands Organisation for Scientific Research (NWO)	Netherlands	--

Revision History (Full details and data files)

Version 1.0: 2023-05-24
Type: Initial release
Version 1.1: 2024-11-06
Changes: Data collection, Structure summary

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.