9IVI | pdb_00009ivi

Crystal structure of AsfvPrimPol N-terminal domain

PDB DOI: https://doi.org/10.2210/pdb9IVI/pdb

Classification: DNA BINDING PROTEIN
Organism(s): African swine fever virus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-07-23 Released: 2025-12-24
Deposition Author(s): Xu, K.E., Chen, Y.T.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free:
0.255 (Depositor), 0.262 (DCC)
R-Value Work:
0.191 (Depositor), 0.204 (DCC)

Starting Model: in silico
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 9IVI

This is version 1.0 of the entry. See complete history.

Literature

Crystal structure of AsfvPrimPol N-terminal domain

Xu, K.E., Chen, Y.T.

To be published.

Macromolecule Content

Total Structure Weight: 64.14 kDa
Atom Count: 4,357
Modeled Residue Count: 519
Deposited Residue Count: 568
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative primase C962R	A, B	284	African swine fever virus	Mutation(s): 0 Gene Names: C962R CDS, C962R, ASFV-Georgia_4-095
UniProt
Find proteins for A0A2X0TKI6 (African swine fever virus) Explore A0A2X0TKI6 Go to UniProtKB: A0A2X0TKI6
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A2X0TKI6
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free: 0.255 (Depositor), 0.262 (DCC)
R-Value Work: 0.191 (Depositor), 0.204 (DCC)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.712	α = 90
b = 72.91	β = 94.97
c = 78.132	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2025-12-24

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: 2025-12-24
Type: Initial release

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.