7WLH | pdb_00007wlh

The crystal structure of African swine fever virus I215L

PDB DOI: https://doi.org/10.2210/pdb7WLH/pdb

Classification: TRANSFERASE
Organism(s): African swine fever virus
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2022-01-13 Released: 2023-07-19
Deposition Author(s): Shen, Z., Liang, R., Yang, Y., Peng, G.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.65 Å
R-Value Free:
0.241 (Depositor), 0.250 (DCC)
R-Value Work:
0.196 (Depositor), 0.200 (DCC)
R-Value Observed:
0.199 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

The crystal structure of African swine fever virus I215L

Shen, Z., Liang, R., Yang, Y., Peng, G.

To be published.

Macromolecule Content

Total Structure Weight: 22.93 kDa
Atom Count: 1,303
Modeled Residue Count: 156
Deposited Residue Count: 197
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
E2 ubiquitin-conjugating enzyme	A [auth B]	197	African swine fever virus	Mutation(s): 0 Gene Names: I215L CDS, I215L, ASFV-Georgia_4-165, ASFV_Kyiv_2016_131_00221 EC: 2.3.2.23
UniProt
Find proteins for A0A2X0TKQ7 (African swine fever virus) Explore A0A2X0TKQ7 Go to UniProtKB: A0A2X0TKQ7
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A2X0TKQ7
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.65 Å
R-Value Free: 0.241 (Depositor), 0.250 (DCC)
R-Value Work: 0.196 (Depositor), 0.200 (DCC)
R-Value Observed: 0.199 (Depositor)

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 142.302	α = 90
b = 142.302	β = 90
c = 39.319	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-07-19

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	32102652

Revision History (Full details and data files)

Version 1.0: 2023-07-19
Type: Initial release
Version 1.1: 2024-11-13
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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.