› 7kl3

X-ray diffraction
1.99Å resolution

The crystal structure of the 2009/H1N1/California PA endonuclease mutant E119D bound to RNA oligomer AG*CAUC (*uncleaveable bond, -UC disordered)

Released:
DOI: 10.2210/pdb7kl3/pdb
PDB entry 7kl3 coloured by chain, front view.
PDB entry 7kl3 coloured by chain, side view.
PDB entry 7kl3 coloured by chain, top view.
Source organism: Influenza A virus
Primary publication:
Structural insights into the substrate specificity of the endonuclease activity of the influenza virus cap-snatching mechanism.
Kumar G, Cuypers M, Webby RR, Webb TR, White SW
Nucleic Acids Res 49 1609-1618 (2021)
PMID: 33469660

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-105424 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Protein PA-X Chain: A
Molecule details ›
Chain: A
Length: 197 amino acids
Theoretical weight: 23.13 KDa
Source organism: Influenza A virus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A5J6VBC3 (Residues: 1-50, 65-183; Coverage: 75%)
Gene name: PA-X
Sequence domains: Influenza RNA-dependent RNA polymerase subunit PA
RNA (5'-R(P*AP*GP*CP*A)-3') Chain: B
Molecule details ›
Chain: B
Length: 6 nucleotides
Theoretical weight: 1.88 KDa

Ligands and Environments

4 bound ligands:
Ligand A 1 x A
Ligand GOL 1 x GOL
Ligand SO4 2 x SO4
Ligand RQA 1 x RQA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-BM
Spacegroup: I422
Unit cell:
a: 89.202Å b: 89.202Å c: 134.246Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.179 0.178 0.21
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

7 citation in other articles

Structure of Rift Valley Fever Virus RNA-Dependent RNA Polymerase.
Wang et al. (2022)
6 more

3 mentions without citation

Not making the cut: Techniques to prevent RNA cleavage in structural studies of RNase-RNA complexes.
Jones et al. (2022)
2 more