› 6kut

Electron Microscopy
4.1Å resolution

Structure of influenza D virus polymerase bound to vRNA promoter in Mode B conformation (Class B2)

Released:
DOI: 10.2210/pdb6kut/pdb
PDB entry 6kut coloured by chain, front view.
PDB entry 6kut coloured by chain, side view.
PDB entry 6kut coloured by chain, top view.
Source organism: Influenza D virus (D/swine/Oklahoma/1334/2011)
Primary publication:
Structural insight into RNA synthesis by influenza D polymerase.
Peng Q, Liu Y, Peng R, Wang M, Yang W, Song H, Chen Y, Liu S, Han M, Zhang X, Wang P, Yan J, Zhang B, Qi J, Deng T, Gao GF, Shi Y
Nat Microbiol 4 1750-1759 (2019)
PMID: 31209309
Related structures: EMD-9580

Function and Biology Details

Reaction catalysed: 
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
PDBe Complex ID:
PDB-CPX-516611 (preferred)
Entry contents:
3 distinct polypeptide molecules
2 distinct RNA molecules
Macromolecules (5 distinct):
Polymerase 3 Chain: A
Molecule details ›
Chain: A
Length: 710 amino acids
Theoretical weight: 83.04 KDa
Source organism: Influenza D virus (D/swine/Oklahoma/1334/2011)
Expression system: Spodoptera aff. frugiperda 1 BOLD-2017
UniProt:
  • Canonical: K9LHJ4 (Residues: 1-710; Coverage: 100%)
Gene name: P3
Sequence domains: Influenza RNA-dependent RNA polymerase subunit PA
RNA-directed RNA polymerase catalytic subunit Chain: B
Molecule details ›
Chain: B
Length: 753 amino acids
Theoretical weight: 86.14 KDa
Source organism: Influenza D virus (D/swine/Oklahoma/1334/2011)
Expression system: Spodoptera aff. frugiperda 1 BOLD-2017
UniProt:
  • Canonical: K9LH03 (Residues: 1-753; Coverage: 100%)
Gene name: PB1
Sequence domains:
Polymerase basic protein 2 Chain: C
Molecule details ›
Chain: C
Length: 772 amino acids
Theoretical weight: 88.48 KDa
Source organism: Influenza D virus (D/swine/Oklahoma/1334/2011)
Expression system: Spodoptera aff. frugiperda 1 BOLD-2017
UniProt:
  • Canonical: K9LHF3 (Residues: 1-772; Coverage: 100%)
Gene name: PB2
Sequence domains:
3'-vRNA Chain: R
Molecule details ›
Chain: R
Length: 14 nucleotides
Theoretical weight: 4.34 KDa
5'-vRNA Chain: V
Molecule details ›
Chain: V
Length: 15 nucleotides
Theoretical weight: 4.92 KDa

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.1Å
Relevant EMDB volumes: EMD-9580
Expression system: Spodoptera aff. frugiperda 1 BOLD-2017

Quick links

Citations

6 review citations

Structure and Function of the Influenza Virus Transcription and Replication Machinery.
Fodor et al. (2020)
5 more

1 mention without citation

Revisiting Viral RNA-Dependent RNA Polymerases: Insights from Recent Structural Studies.
Ramaswamy et al. (2022)