› 5fdg

X-ray diffraction
2.1Å resolution

Endonuclease inhibitor 3 bound to influenza strain H1N1 polymerase acidic subunit N-terminal region at pH 7.0

Released:
DOI: 10.2210/pdb5fdg/pdb
PDB entry 5fdg coloured by chain, front view.
PDB entry 5fdg coloured by chain, side view.
PDB entry 5fdg coloured by chain, top view.
Source organism: Influenza A virus (A/Puerto Rico/8/1934(H1N1))
Primary publication:
Two Distinctive Binding Modes of Endonuclease Inhibitors to the N-Terminal Region of Influenza Virus Polymerase Acidic Subunit.
Fudo S, Yamamoto N, Nukaga M, Odagiri T, Tashiro M, Hoshino T
Biochemistry 55 2646-60 (2016)
PMID: 27088785

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-137016 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Polymerase acidic protein Chain: A
Molecule details ›
Chain: A
Length: 191 amino acids
Theoretical weight: 22.3 KDa
Source organism: Influenza A virus (A/Puerto Rico/8/1934(H1N1))
Expression system: Escherichia coli
UniProt:
  • Canonical: P03433 (Residues: 1-50, 73-197; Coverage: 24%)
Gene name: PA
Structure domains: Influenza RNA-dependent RNA polymerase subunit PA, endonuclease domain

Ligands and Environments

3 bound ligands:
Ligand SO4 1 x SO4
Ligand MN 2 x MN
Ligand 0N8 1 x 0N8
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-17A
Spacegroup: P41212
Unit cell:
a: 66.438Å b: 66.438Å c: 126.977Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.192 0.19 0.228
Expression system: Escherichia coli

Quick links

Citations

2 review citations

The Influenza Virus Polymerase Complex: An Update on Its Structure, Functions, and Significance for Antiviral Drug Design.
Stevaert et al. (2016)
1 more

1 mention without citation

Novel 1,2,4-Triazole- and Tetrazole-Containing 4H-Thiopyrano[2,3-b]quinolines: Synthesis Based on the Thio-Michael/aza-Morita-Baylis-Hillman Tandem Reaction and Investigation of Antiviral Activity.
Khramchikhin et al. (2023)