Sodium in PDB 7w4a: Cryo-Em Structure of the Gastric Proton Pump Complexed with Revaprazan

All present enzymatic activity of Cryo-Em Structure of the Gastric Proton Pump Complexed with Revaprazan:
3.6.3.10;

The structure of Cryo-Em Structure of the Gastric Proton Pump Complexed with Revaprazan also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Fluorine	(F)	4 atoms

The binding sites of Sodium atom in the Cryo-Em Structure of the Gastric Proton Pump Complexed with Revaprazan (pdb code 7w4a). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Cryo-Em Structure of the Gastric Proton Pump Complexed with Revaprazan, PDB code: 7w4a:

Sodium binding site 1 out of 1 in the Cryo-Em Structure of the Gastric Proton Pump Complexed with Revaprazan


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Cryo-Em Structure of the Gastric Proton Pump Complexed with Revaprazan within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1102 b:31.9 occ:1.00 OD1 A:ASP756 2.7 24.0 1.0 OD2 A:ASP756 2.9 24.0 1.0 CG A:ASP756 3.1 24.0 1.0 OD1 A:ASN288 3.3 39.8 1.0 CG A:ASN288 3.9 39.8 1.0 O A:ALA737 4.1 22.5 1.0 O A:ASP738 4.3 20.5 1.0 O A:LYS735 4.3 29.2 1.0 ND2 A:ASN288 4.5 39.8 1.0 CB A:ASP756 4.7 24.0 1.0 CB A:ASN288 4.7 39.8 1.0 O A:ALA754 4.8 27.9 1.0 O A:LEU734 4.9 23.3 1.0

S.Tanaka, M.Morita, T.Yamagishi, H.V.Madapally, K.Hayashida, H.Khandelia, C.Gerle, H.Shigematsu, A.Oshima, K.Abe. Structural Basis For Binding of Potassium-Competitive Acid Blockers to the Gastric Proton Pump. J.Med.Chem. V. 65 7843 2022.
ISSN: ISSN 0022-2623
PubMed: 35604136
DOI: 10.1021/ACS.JMEDCHEM.2C00338