Rubidium in PDB 7efm: Crystal Structure of the Gastric Proton Pump K791S/E820D/Y340N in (Byk)E2BEF State

The structure of Crystal Structure of the Gastric Proton Pump K791S/E820D/Y340N in (Byk)E2BEF State, PDB code: 7efm was solved by K.Abe, K.Yamamoto, K.Irie, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.15 / 3.20
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	104.69, 104.69, 368.02, 90, 90, 120
R / Rfree (%)	22.8 / 29.3

The structure of Crystal Structure of the Gastric Proton Pump K791S/E820D/Y340N in (Byk)E2BEF State also contains other interesting chemical elements:

Fluorine	(F)	3 atoms
Magnesium	(Mg)	1 atom

The binding sites of Rubidium atom in the Crystal Structure of the Gastric Proton Pump K791S/E820D/Y340N in (Byk)E2BEF State (pdb code 7efm). This binding sites where shown within 5.0 Angstroms radius around Rubidium atom.
In total 3 binding sites of Rubidium where determined in the Crystal Structure of the Gastric Proton Pump K791S/E820D/Y340N in (Byk)E2BEF State, PDB code: 7efm:
Jump to Rubidium binding site number: 1; 2; 3;

Rubidium binding site 1 out of 3 in the Crystal Structure of the Gastric Proton Pump K791S/E820D/Y340N in (Byk)E2BEF State


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 1 of Crystal Structure of the Gastric Proton Pump K791S/E820D/Y340N in (Byk)E2BEF State within 5.0Å range: probe atom residue distance (Å) B Occ A:Rb1102 b:83.2 occ:1.00 O A:ALA737 2.8 37.3 1.0 O A:LYS735 2.8 46.7 1.0 OD2 A:ASP756 2.9 68.8 1.0 O A:LEU734 3.1 46.1 1.0 OD1 A:ASP756 3.4 68.4 1.0 CG A:ASP756 3.6 64.9 1.0 C A:LYS735 3.6 53.2 1.0 CA A:LYS735 3.8 56.8 1.0 C A:ALA737 3.9 37.6 1.0 N A:GLY740 4.0 53.0 1.0 O A:ALA754 4.1 51.3 1.0 ND2 A:ASN288 4.1 71.2 1.0 CB A:ASN288 4.1 82.8 1.0 C A:LEU734 4.2 50.8 1.0 N A:ALA737 4.2 48.0 1.0 N A:LYS735 4.5 54.1 1.0 CA A:ALA737 4.5 43.0 1.0 CG A:ASN288 4.6 76.1 1.0 CA A:GLY740 4.6 50.6 1.0 C A:ASP738 4.7 43.6 1.0 O A:ASP738 4.7 45.9 1.0 C A:ILE739 4.7 49.4 1.0 CB A:ALA737 4.7 38.8 1.0 CA A:ILE739 4.7 50.8 1.0 N A:LYS736 4.8 51.0 1.0 C A:LYS736 4.8 49.0 1.0 N A:ILE739 4.8 43.2 1.0

Rubidium binding site 2 out of 3 in the Crystal Structure of the Gastric Proton Pump K791S/E820D/Y340N in (Byk)E2BEF State


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 2 of Crystal Structure of the Gastric Proton Pump K791S/E820D/Y340N in (Byk)E2BEF State within 5.0Å range: probe atom residue distance (Å) B Occ A:Rb1103 b:79.2 occ:1.00 O A:SER408 2.7 53.4 1.0 O A:GLN418 2.9 85.8 1.0 OG A:SER408 3.4 49.8 1.0 O A:THR419 3.5 64.7 1.0 C A:GLN418 3.8 77.3 1.0 C A:THR419 3.8 63.1 1.0 C A:SER408 3.8 47.8 1.0 CB A:GLN418 4.1 84.0 1.0 CA A:PHE420 4.2 62.9 1.0 N A:PHE420 4.2 58.8 1.0 CB A:SER408 4.5 42.9 1.0 CA A:THR419 4.5 69.3 1.0 CA A:SER408 4.5 42.8 1.0 N A:THR419 4.5 72.5 1.0 N A:SER408 4.5 46.8 1.0 CB A:PHE420 4.5 61.0 1.0 CA A:GLN418 4.6 75.3 1.0 O A:ALA409 4.9 73.6 1.0 N A:ALA409 4.9 48.2 1.0

Rubidium binding site 3 out of 3 in the Crystal Structure of the Gastric Proton Pump K791S/E820D/Y340N in (Byk)E2BEF State


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 3 of Crystal Structure of the Gastric Proton Pump K791S/E820D/Y340N in (Byk)E2BEF State within 5.0Å range: probe atom residue distance (Å) B Occ A:Rb1105 b:97.5 occ:1.00 OD1 A:ASN792 2.9 96.9 1.0 OD2 A:ASP820 2.9 83.5 1.0 OE1 A:GLU343 3.0 69.7 1.0 O A:VAL341 3.1 71.0 1.0 OE1 A:GLU795 3.1 100.8 1.0 O A:ALA339 3.3 69.5 1.0 OE2 A:GLU343 3.7 73.8 1.0 CD A:GLU343 3.8 72.7 1.0 CG A:ASN792 3.8 91.4 1.0 C A:VAL341 4.1 69.4 1.0 CG A:ASP820 4.1 82.5 1.0 C A:ALA339 4.2 68.7 1.0 CA A:PRO342 4.3 63.5 1.0 CD A:GLU795 4.3 102.3 1.0 ND2 A:ASN792 4.4 94.5 1.0 CA A:ALA339 4.5 69.2 1.0 O A:VAL338 4.5 52.9 1.0 N A:PRO342 4.6 64.3 1.0 CG2 A:ILE816 4.6 54.3 1.0 OD1 A:ASP820 4.7 86.4 1.0 CB A:ASN792 4.8 81.3 1.0 N A:GLU343 4.9 69.0 1.0 N A:VAL341 4.9 77.0 1.0 CA A:ASN792 4.9 80.5 1.0

K.Abe, K.Yamamoto, K.Irie. Crystal Structure of the Gastric Proton Pump Mutants To Be Published.