2XZB

Pig Gastric H,K-ATPase with bound BeF and SCH28080


Experimental Data Snapshot

  • Method: ELECTRON CRYSTALLOGRAPHY
  • Resolution: 7 Å
  • Aggregation State: 2D ARRAY 
  • Reconstruction Method: CRYSTALLOGRAPHY 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Conformational Rearrangement of Gastric H(+),K(+)- ATPase Induced by an Acid Suppressant.

Abe, K.Tani, K.Fujiyoshi, Y.

(2011) Nat.Commun. 2: 155

  • DOI: 10.1038/ncomms1154

  • PubMed Abstract: 
  • Acid-related gastric diseases are associated with disorder of digestive tract acidification. The gastric proton pump, H(+),K(+)-ATPase, exports H(+) in exchange for luminal K(+) to generate a highly acidic environment in the stomach, and is a main ta ...

    Acid-related gastric diseases are associated with disorder of digestive tract acidification. The gastric proton pump, H(+),K(+)-ATPase, exports H(+) in exchange for luminal K(+) to generate a highly acidic environment in the stomach, and is a main target for acid suppressants. Here, we report the three-dimensional structure of gastric H(+),K(+)-ATPase with bound SCH28080, a representative K(+)-competitive acid blocker, at 7 Å resolution based on electron crystallography of two-dimensional crystals. The density of the bound SCH28080 is found near transmembrane (TM) helices 4, 5 and 6, in the luminal cavity. The SCH28080-binding site is formed by the rearrangement of TM helices, which is in turn transmitted to the cytoplasmic domains, resulting in a luminal-open conformation. These results represent the first structural evidence for a binding site of an acid suppressant on H(+),K(+)-ATPase, and the conformational change induced by this class of drugs.


    Organizational Affiliation

    Department of Biophysics, Faculty of Science, Kyoto University, Oiwake, Kitashirakawa, Sakyo-ku, Kyoto 606-0852, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
POTASSIUM-TRANSPORTING ATPASE ALPHA CHAIN 1
A
1034Sus scrofaMutation(s): 0 
Gene Names: ATP4A
EC: 3.6.3.10
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
P-type ATPase
Protein: 
gastric H+,K+-ATPase with bound BeF and SCH28080
Find proteins for P19156 (Sus scrofa)
Go to Gene View: ATP4A
Go to UniProtKB:  P19156
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
POTASSIUM-TRANSPORTING ATPASE SUBUNIT BETA
B
290Sus scrofaMutation(s): 0 
Gene Names: ATP4B
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
P-type ATPase
Protein: 
gastric H+,K+-ATPase with bound BeF and SCH28080
Find proteins for P18434 (Sus scrofa)
Go to Gene View: ATP4B
Go to UniProtKB:  P18434
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON CRYSTALLOGRAPHY
  • Resolution: 7 Å
  • Aggregation State: 2D ARRAY 
  • Reconstruction Method: CRYSTALLOGRAPHY 
Software Package:
Software NamePurpose
MRCdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-01-26
    Type: Initial release
  • Version 1.1: 2012-03-21
    Type: Other, Version format compliance
  • Version 1.2: 2012-04-11
    Type: Other