5IF8

Crystal structure of polymerase acid protein (PA) from Influenza A virus, WILSON-SMITH/1933 (H1N1) bound to fragment hit EBSI-2643 5-[(4-chlorophenyl)methyl]-1,3,4-oxadiazol-2-amine

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.182 
  • R-Value Observed: 0.185 

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Ligand Structure Quality Assessment 


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


Literature

Fragment screening by STD NMR identifies novel site binders against influenza A virus polymerase PA

Pierce, P., Muruthi, M.M., Abendroth, J., Moen, S.O., Begley, D.W., Davies, D.R., Marathias, V.M., Staker, B.L., Myler, P.J., Lorimer, D.D., Edwards, T.E.

To be published.

Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
Molecule Chains  Sequence Length Organism Details Image
Polymerase acidic protein
A
464 Influenza A virus (A/Wilson-Smith/1933(H1N1)) Mutation(s): 0 
Gene Names: PA
UniProt
Find proteins for P15659 (Influenza A virus (strain A/Wilson-Smith/1933 H1N1))
Explore P15659 
Go to UniProtKB:  P15659
Entity Groups  
Sequence Clusters 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group P15659
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 5 Unique
ID Chains  Name / Formula / InChI Key 2D Diagram 3D Interactions
6AX
Query on 6AX
Download Ideal Coordinates CCD File 
 B [auth A] 5-[(4-chlorophenyl)methyl]-1,3,4-oxadiazol-2-amine
C9 H8 Cl N3 O
CSYAPQQQRVPGKN-UHFFFAOYSA-N
GOL
Query on GOL
Download Ideal Coordinates CCD File 
 F [auth A] GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
DMS
Query on DMS
Download Ideal Coordinates CCD File 
 C [auth A] DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
EDO
Query on EDO
Download Ideal Coordinates CCD File 
 E [auth A] 1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
CL
Query on CL
Download Ideal Coordinates CCD File 
 D [auth A] CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.182 
  • R-Value Observed: 0.185 
  • Space Group: P 65 2 2
Unit Cell:
Length ( Å ) Angle ( ˚ )
a = 68.78 α = 90
b = 68.78 β = 90
c = 396.1 γ = 120
Software Package:
Software Name Purpose
XSCALE data scaling
PHENIX refinement
PDB_EXTRACT data extraction
XDS data reduction
PHASER phasing

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-02-22
    Type: Initial release
  • Version 1.1: 2024-03-06
    Changes: Data collection, Database references