7QRJ | pdb_00007qrj

Crystal structure of Zamilon vitis protein Zav_19

PDB DOI: https://doi.org/10.2210/pdb7QRJ/pdb

Classification: VIRAL PROTEIN
Organism(s): Zamilon virus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2022-01-11 Released: 2023-01-25
Deposition Author(s): Jeudy, S., Abergel, C.
Funding Organization(s): Agence Nationale de la Recherche (ANR)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.38 Å
R-Value Free:
0.165 (Depositor), 0.160 (DCC)
R-Value Work:
0.141 (Depositor), 0.140 (DCC)
R-Value Observed:
0.142 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

The fibre head structure used by unrelated families of viruses is unexpectedly a major component of the Marseilleviridae and Zamilon virophages capsids

Jeudy, S., Abergel, C.

To be published.

Macromolecule Content

Total Structure Weight: 117.61 kDa
Atom Count: 9,697
Modeled Residue Count: 1,089
Deposited Residue Count: 1,104
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Zav_19 protein	A, B, C, D, E A, B, C, D, E, F	184	Zamilon virus	Mutation(s): 0 Gene Names: za3_19
UniProt
Find proteins for A0A2P1EHJ0 (Zamilon virus) Explore A0A2P1EHJ0 Go to UniProtKB: A0A2P1EHJ0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A2P1EHJ0
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.38 Å
R-Value Free: 0.165 (Depositor), 0.160 (DCC)
R-Value Work: 0.141 (Depositor), 0.140 (DCC)
R-Value Observed: 0.142 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 154.367	α = 90
b = 103.258	β = 131.48
c = 102.299	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
SHELX	phasing
PDB_EXTRACT	data extraction

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-01-25

Deposition Author(s):

Funding Organization	Location	Grant Number
Agence Nationale de la Recherche (ANR)	France	ANR-20-CE11-0001

Revision History (Full details and data files)

Version 1.0: 2023-01-25
Type: Initial release
Version 1.1: 2024-06-19
Changes: Data collection

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.