7U0V | pdb_00007u0v

Structure of myxoma virus M062 protein variant Lau

PDB DOI: https://doi.org/10.2210/pdb7U0V/pdb

Classification: VIRAL PROTEIN
Organism(s): Myxoma virus (strain Lausanne)
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2022-02-19 Released: 2023-02-22
Deposition Author(s): O'Byrne, P., Khan, A.R.
Funding Organization(s): Science Foundation Ireland

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free:
0.266 (Depositor), 0.300 (DCC)
R-Value Work:
0.211 (Depositor), 0.266 (DCC)
R-Value Observed:
0.217 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 7U0V

This is version 1.2 of the entry. See complete history.

Literature

Structure of myxoma virus M062 protein variant MAV

O'Byrne, P., Khan, A.R.

To be published.

Macromolecule Content

Total Structure Weight: 18.71 kDa
Atom Count: 1,271
Modeled Residue Count: 156
Deposited Residue Count: 161
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable host range protein 2-1	A	161	Myxoma virus (strain Lausanne)	Mutation(s): 3 Gene Names: m062R
UniProt
Find proteins for P68550 (Myxoma virus (strain Lausanne)) Explore P68550 Go to UniProtKB: P68550
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P68550
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NI Query on NI Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free: 0.266 (Depositor), 0.300 (DCC)
R-Value Work: 0.211 (Depositor), 0.266 (DCC)
R-Value Observed: 0.217 (Depositor)

Space Group: P 6₄

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 94.827	α = 90
b = 94.827	β = 90
c = 44.136	γ = 120

Software Package:

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

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2023-02-22

Deposition Author(s):

Funding Organization	Location	Grant Number
Science Foundation Ireland	Ireland	SFI 12/1A/1239

Revision History (Full details and data files)

Version 1.0: 2023-02-22
Type: Initial release
Version 1.1: 2023-08-30
Changes: Data collection, Source and taxonomy, Structure summary
Version 1.2: 2023-10-25
Changes: Refinement description

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.