5HR9

The crystal structure of Se-AsfvPolX(L52/163M mutant) in complex with 1nt-gap DNA1

• PDB DOI: https://doi.org/10.2210/pdb5HR9/pdb
• NAKB: 5HR9

• Classification: TRANSFERASE/DNA
• Organism(s): African swine fever virus, synthetic construct
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2016-01-23 Released: 2017-01-18 
• Deposition Author(s): Chen, Y.Q., Zhang, J., Gan, J.H.
• Funding Organization(s): National Natural Science Fundation of China

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.256 
• R-Value Work: 0.206 
• R-Value Observed: 0.209 

Literature

The crystal structure of Se-AsfvPolX(L52/163M mutant) in complex with 1nt-gap DNA1

Chen, Y.Q., Zhang, J., Gan, J.H.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 59.36 kDa 
• Atom Count: 4,105 
• Modelled Residue Count: 409 
• Deposited Residue Count: 414 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA polymerase beta-like protein	A, B	178	African swine fever virus	Mutation(s): 2  Gene Names: O174L
UniProt
Find proteins for P42494 (African swine fever virus (strain Badajoz 1971 Vero-adapted)) Explore P42494  Go to UniProtKB:  P42494

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*GP*GP*AP*CP*AP*AP*CP*GP*GP*GP*AP*CP*AP*AP*C)-3')	C, F	15	synthetic construct

Entity ID: 3
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*GP*TP*TP*GP*TP*CP*C)-3')	D, E, G, H	7	synthetic construct

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.256 
• R-Value Work: 0.206 
• R-Value Observed: 0.209 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.323	α = 90
b = 82.24	β = 90
c = 101.416	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2017-01-18 
Deposition Author(s): Chen, Y.Q., Zhang, J., Gan, J.H.

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Funding Organization	Location	Grant Number
National Natural Science Fundation of China	China	31370728

Revision History  

• Version 1.0: 2017-01-18
  Type: Initial release