9F2R | pdb_00009f2r

Influenza A/H17N10 polymerase with bound promoter and 3' end of template in active site

• PDB DOI: https://doi.org/10.2210/pdb9F2R/pdb
• NAKB: 9F2R

• Classification: VIRAL PROTEIN
• Organism(s): Influenza A virus
• Expression System: Trichoplusia ni
• Mutation(s): No 


• Deposited: 2024-04-23 Released: 2024-09-18 
• Deposition Author(s): Cusack, S., Drncova, P.
• Funding Organization(s): Agence Nationale de la Recherche (ANR)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.96 Å
• R-Value Free: 
  0.245 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.189 (Depositor), 0.197 (DCC) 

Starting Model: experimental

Literature

High-resolution structure of a replication-initiation like configuration of influenza polymerase active site visualises the essential role of a conserved dibasic motif in the PA subunit

Drncova, P., Krischuns, T., Naffakh, N., Cusack, S.

(2024) bioRxiv 

• DOI: https://doi.org/10.1101/2023.11.20.567839

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 277.07 kDa 
• Atom Count: 19,393 
• Modeled Residue Count: 2,207 
• Deposited Residue Count: 2,360 
• Unique protein chains: 3
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Polymerase acidic protein	A	738	Influenza A virus	Mutation(s): 0  Gene Names: PA
UniProt
Find proteins for H6QM92 (Influenza A virus) Explore H6QM92  Go to UniProtKB:  H6QM92

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA-directed RNA polymerase catalytic subunit	B	776	Influenza A virus	Mutation(s): 0  Gene Names: PB1 EC: 2.7.7.48
UniProt
Find proteins for H6QM91 (Influenza A virus) Explore H6QM91  Go to UniProtKB:  H6QM91

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Polymerase basic protein 2	C	809	Influenza A virus	Mutation(s): 0  Gene Names: PB2
UniProt
Find proteins for H6QM90 (Influenza A virus) Explore H6QM90  Go to UniProtKB:  H6QM90

Entity ID: 4
Molecule	Chains	Length	Organism	Image
3' end of the promoter vRNA	D [auth R]	21	Influenza A virus

Entity ID: 5
Molecule	Chains	Length	Organism	Image
5' end of the promoter vRNA	E [auth V]	16	Influenza A virus

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MGT (Subject of Investigation/LOI)	I [auth C]	7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE C11 H20 N5 O14 P3 BUJQMJUTTBGELS-KQYNXXCUSA-N
GOL	F [auth A], G [auth B], J [auth C]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
MG	H [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.96 Å
• R-Value Free:  0.245 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.189 (Depositor), 0.197 (DCC) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 91.08	α = 90
b = 119.267	β = 90
c = 251.555	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
autoPROC	data reduction
autoPROC	data scaling

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2024-09-18 
Deposition Author(s): Cusack, S., Drncova, P.

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Funding Organization	Location	Grant Number
Agence Nationale de la Recherche (ANR)	France	ANR-18-CE11-0028

Revision History  

• Version 1.0: 2024-09-18
  Type: Initial release
  
• Version 1.1: 2026-04-01
  Changes: Database references, Structure summary