6KUU | pdb_00006kuu

Structure of influenza D virus polymerase bound to vRNA promoter in Mode B conformation (Class B3)

• PDB DOI: https://doi.org/10.2210/pdb6KUU/pdb
• Entry: 6KUU supersedes: 6ABG
• NAKB: 6KUU
• EM Map EMD-9582: EMDB EMDataResource

• Classification: VIRAL PROTEIN/RNA
• Organism(s): Influenza D virus (D/swine/Oklahoma/1334/2011), synthetic construct
• Expression System: Spodoptera aff. frugiperda 1 BOLD-2017
• Mutation(s): No 


• Deposited: 2019-09-02 Released: 2019-12-11 
• Deposition Author(s): Peng, Q., Peng, R., Qi, J., Gao, G.F., Shi, Y.
• Funding Organization(s): Chinese Academy of Sciences

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 4.00 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure of influenza D virus polymerase bound to vRNA promoter in Mode B conformation (Class B3)

Peng, Q., Peng, R., Qi, J., Gao, G.F., Shi, Y.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 266.91 kDa 
• Atom Count: 12,364 
• Modeled Residue Count: 1,492 
• Deposited Residue Count: 2,264 
• Unique protein chains: 3
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Polymerase 3	A	710	Influenza D virus (D/swine/Oklahoma/1334/2011)	Mutation(s): 0  Gene Names: P3
UniProt
Find proteins for K9LHJ4 (Influenza D virus) Explore K9LHJ4  Go to UniProtKB:  K9LHJ4

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA-directed RNA polymerase catalytic subunit	B	753	Influenza D virus (D/swine/Oklahoma/1334/2011)	Mutation(s): 0  Gene Names: PB1 EC: 2.7.7.48
UniProt
Find proteins for K9LH03 (Influenza D virus) Explore K9LH03  Go to UniProtKB:  K9LH03

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Polymerase PB2	C	772	Influenza D virus (D/swine/Oklahoma/1334/2011)	Mutation(s): 0  Gene Names: PB2
UniProt
Find proteins for K9LHF3 (Influenza D virus) Explore K9LHF3  Go to UniProtKB:  K9LHF3

Entity ID: 4
Molecule	Chains	Length	Organism	Image
3'-vRNA	D [auth R]	14	synthetic construct

Entity ID: 5
Molecule	Chains	Length	Organism	Image
5'-vRNA	E [auth V]	15	synthetic construct

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 4.00 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-12-11 
Deposition Author(s): Peng, Q., Peng, R., Qi, J., Gao, G.F., Shi, Y.
• This entry supersedes: 6ABG

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Funding Organization	Location	Grant Number
Chinese Academy of Sciences	China	XDB08020100

Revision History  

• Version 1.0: 2019-12-11
  Type: Initial release
  
• Version 1.1: 2024-03-27
  Changes: Data collection, Database references
• Version 1.2: 2025-06-25
  Changes: Data collection, Structure summary