9VVO image
Deposition Date 2025-07-16
Release Date 2026-01-14
Last Version Date 2026-02-04
Entry Detail
PDB ID:
9VVO
Keywords:
MEMBRANE PROTEIN
Title:
cryo-EM structure of gastric proton pump bound to YK01
Biological Source:
Source Organism(s):
Sus scrofa (Taxon ID: 9823)
Expression System(s):
Homo sapiens
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
2.66 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
9VVO validation report
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Sodium/potassium-transporting ATPase subunit alpha
Gene (Uniprot):ATP4A
Chain IDs:A
Chain Length:983
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:A0A8D1T4M7
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Potassium-transporting ATPase subunit beta
Gene (Uniprot):ATP4B
Chain IDs:B
Chain Length:268
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:P18434 Pfam ID:PF00287 EC:7.2.2.19
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
BFD A ASP modified residue
Ligand Molecules
A1MA7
CLR
MG
NAG
PCW
Primary Citation
Design, synthesis, and structural analysis of an inhibitor of the gastric proton pump with a diaza-tricyclic skeleton.
Org.Biomol.Chem. ? ? ? (2026)
PMID: 41536160 DOI: 10.1039/d5ob01828e

Abstact

The development of potent K+-competitive acid blockers (P-CABs) as inhibitors of acid gastric secretion attracts much research attention. In this study, the structure-guided design and enantioselective synthesis of P-CABs yielded a diaza-tricyclic compound with moderate inhibitory activity against the gastric proton pump. The eutomer was experimentally confirmed, consistent with pharmacophore predictions, and its binding mode to the gastric proton pump was elucidated via cryo-electron microscopy.

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Primary Citation of related structures
9VVO
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