Magnesium in PDB 8jmn: Cryo-Em Structure of the Gastric Proton Pump with Bound Dq-21

The structure of Cryo-Em Structure of the Gastric Proton Pump with Bound Dq-21 also contains other interesting chemical elements:

Chlorine	(Cl)	1 atom
Fluorine	(F)	3 atoms

The binding sites of Magnesium atom in the Cryo-Em Structure of the Gastric Proton Pump with Bound Dq-21 (pdb code 8jmn). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Cryo-Em Structure of the Gastric Proton Pump with Bound Dq-21, PDB code: 8jmn:

Magnesium binding site 1 out of 1 in the Cryo-Em Structure of the Gastric Proton Pump with Bound Dq-21


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of the Gastric Proton Pump with Bound Dq-21 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1102 b:21.5 occ:1.00 O A:HOH1225 1.9 24.9 1.0 O A:THR387 2.0 29.2 1.0 OD2 A:BFD385 2.2 26.2 1.0 O A:HOH1205 2.3 25.4 1.0 F1 A:BFD385 2.3 38.6 1.0 OD1 A:ASP726 2.4 27.2 1.0 CG A:BFD385 3.0 19.4 1.0 BE A:BFD385 3.0 12.7 1.0 C A:THR387 3.2 20.3 1.0 OD1 A:BFD385 3.2 29.6 1.0 CG A:ASP726 3.4 19.6 1.0 OD2 A:ASP726 3.7 28.1 1.0 OD2 A:ASP730 3.8 29.6 1.0 CA A:THR387 4.0 17.9 1.0 CB A:THR387 4.1 20.7 1.0 N A:THR387 4.1 23.9 1.0 N A:GLY727 4.1 21.8 1.0 OG1 A:THR389 4.2 20.8 1.0 N A:GLY388 4.2 18.0 1.0 O A:SER225 4.2 36.8 1.0 F2 A:BFD385 4.3 29.8 1.0 CB A:BFD385 4.4 13.7 1.0 CA A:GLY388 4.4 9.0 1.0 F3 A:BFD385 4.4 31.2 1.0 OD1 A:ASN729 4.5 34.2 1.0 N A:ASP726 4.6 21.4 1.0 CA A:GLY727 4.6 17.4 1.0 N A:THR389 4.6 22.8 1.0 CB A:ASP726 4.7 20.7 1.0 C A:GLY388 4.8 12.5 1.0 C A:LYS386 4.8 20.3 1.0 CG2 A:THR387 4.8 20.0 1.0 CG A:ASP730 4.8 31.6 1.0 C A:ASP726 5.0 23.4 1.0

K.Abe, S.Yokoshima, A.Yoshimori. Deep Learning Driven De Novo Drug Design Based on Gastric Proton Pump Structures To Be Published.