9UUH | pdb_00009uuh

binary complex of ATP-bound polyphosphate kinase 1 (PPK1)

• PDB DOI: https://doi.org/10.2210/pdb9UUH/pdb
• EM Map EMD-64511: EMDB EMDataResource

• Classification: TRANSFERASE
• Organism(s): Citrobacter freundii
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2025-05-07 Released: 2026-03-04 
• Deposition Author(s): Jiang, W.J., Zhao, J., Wei, W.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.07 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural Insights into PPK1 Catalyzed Triple Phosphoryl Transfer Underlying Polyphosphate Biosynthesis

Jiang, W.J., Zhao, J., Wei, W.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 322.09 kDa 
• Atom Count: 21,000 
• Modeled Residue Count: 2,528 
• Deposited Residue Count: 2,732 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Polyphosphate kinase	A, B, C, D	683	Citrobacter freundii	Mutation(s): 0  Gene Names:  ppk1, ppk, AI2935V1_1415, AM363_21060, AN672_02535, HV178_06940, I9Y29_001391, KY227_003292, O4000_06400, PQQ21_001765, RYZ67_05450, SGX49_000532 EC: 2.7.4.1
UniProt
Find proteins for A0A0D7LNR8 (Citrobacter freundii) Explore A0A0D7LNR8  Go to UniProtKB:  A0A0D7LNR8

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ATP (Subject of Investigation/LOI)	E [auth A], F [auth B], G [auth C], H [auth D]	ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.07 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-03-04 
Deposition Author(s): Jiang, W.J., Zhao, J., Wei, W.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2026-03-04
  Type: Initial release