Magnesium in PDB 8dmf: Cryo-Em Structure of the Ribosome-Bound Bacteroides Thetaiotaomicron Ef-G2

The binding sites of Magnesium atom in the Cryo-Em Structure of the Ribosome-Bound Bacteroides Thetaiotaomicron Ef-G2 (pdb code 8dmf). 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 Ribosome-Bound Bacteroides Thetaiotaomicron Ef-G2, PDB code: 8dmf:

Magnesium binding site 1 out of 1 in the Cryo-Em Structure of the Ribosome-Bound Bacteroides Thetaiotaomicron Ef-G2


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 Ribosome-Bound Bacteroides Thetaiotaomicron Ef-G2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg801 b:188.2 occ:1.00 O3A A:GTP802 2.0 186.7 1.0 O3G A:GTP802 2.2 186.7 1.0 N A:THR23 2.2 170.3 1.0 PA A:GTP802 2.6 186.7 1.0 OG1 A:THR23 2.6 170.3 1.0 CB A:THR23 2.6 170.3 1.0 O2A A:GTP802 2.7 186.7 1.0 CG A:LYS22 2.7 176.2 1.0 PB A:GTP802 2.7 186.7 1.0 CA A:THR23 2.9 170.3 1.0 O2B A:GTP802 2.9 186.7 1.0 O1A A:GTP802 3.0 186.7 1.0 PG A:GTP802 3.0 186.7 1.0 O3B A:GTP802 3.1 186.7 1.0 C A:LYS22 3.3 176.2 1.0 N A:LYS22 3.5 176.2 1.0 O2G A:GTP802 3.7 186.7 1.0 CA A:LYS22 3.7 176.2 1.0 CB A:LYS22 3.7 176.2 1.0 CD A:LYS22 3.9 176.2 1.0 CE A:LYS22 3.9 176.2 1.0 CG2 A:THR23 4.1 170.3 1.0 C A:THR23 4.1 170.3 1.0 O5' A:GTP802 4.1 186.7 1.0 O1B A:GTP802 4.2 186.7 1.0 N A:THR24 4.2 171.4 1.0 O1G A:GTP802 4.4 186.7 1.0 O A:LYS22 4.4 176.2 1.0 OD2 A:ASP80 4.4 183.4 1.0 OG A:SER61 4.5 182.3 1.0 C A:GLY21 4.6 195.6 1.0

W.Han, B.Z.Peng, C.Wang, G.E.Townsend 2Nd, N.A.Barry, F.Peske, A.L.Goodman, J.Liu, M.V.Rodnina, E.A.Groisman. Gut Colonization By Bacteroides Requires Translation By An Ef-G Paralog Lacking Gtpase Activity. Embo J. 12372 2022.
ISSN: ESSN 1460-2075
PubMed: 36472247
DOI: 10.15252/EMBJ.2022112372