Magnesium in PDB 3vmf: Archaeal Protein

The structure of Archaeal Protein, PDB code: 3vmf was solved by K.Kobayashi, K.Saito, R.Ishitani, K.Ito, O.Nureki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.50 / 2.30
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	176.567, 55.169, 90.689, 90.00, 101.61, 90.00
R / Rfree (%)	20.1 / 26.1

The binding sites of Magnesium atom in the Archaeal Protein (pdb code 3vmf). 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 Archaeal Protein, PDB code: 3vmf:

Magnesium binding site 1 out of 1 in the Archaeal Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Archaeal Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:40.3 occ:1.00 O A:HOH657 2.2 40.5 1.0 O A:HOH656 2.3 35.7 1.0 OG1 A:THR71 2.4 33.7 1.0 O2B A:GTP501 2.5 39.5 1.0 OG A:SER20 2.5 40.3 1.0 O2G A:GTP501 2.5 34.9 1.0 O3B A:GTP501 3.0 39.8 1.0 CB A:SER20 3.1 37.5 1.0 CB A:THR71 3.2 33.0 1.0 PG A:GTP501 3.2 32.6 1.0 PB A:GTP501 3.3 32.5 1.0 N A:SER20 3.8 38.4 1.0 OD2 A:ASP60 3.8 35.3 1.0 O3G A:GTP501 3.9 34.9 1.0 N A:THR71 3.9 34.5 1.0 O1A A:GTP501 4.0 32.2 1.0 OD2 A:ASP90 4.0 42.1 1.0 CA A:SER20 4.0 38.5 1.0 CA A:THR71 4.1 35.2 1.0 OD1 A:ASP60 4.2 37.6 1.0 O1B A:GTP501 4.3 29.8 1.0 CG2 A:THR71 4.3 33.4 1.0 O3A A:GTP501 4.4 35.8 1.0 OD1 A:ASP90 4.4 43.4 1.0 CG A:ASP60 4.4 39.6 1.0 O1G A:GTP501 4.5 32.0 1.0 PA A:GTP501 4.5 35.6 1.0 O2A A:GTP501 4.6 38.0 1.0 CB A:LYS19 4.6 33.5 1.0 CG A:ASP90 4.6 42.2 1.0 CE A:LYS19 4.6 30.1 1.0 O A:ALA91 4.8 32.4 1.0 C A:LYS19 4.8 40.4 1.0 C A:ILE70 4.9 36.2 1.0 O A:HOH619 5.0 35.1 1.0

K.Kobayashi, K.Saito, R.Ishitani, K.Ito, O.Nureki. Structural Basis For Translation Termination By Archaeal RF1 and Gtp-Bound EF1ALPHA Complex Nucleic Acids Res. V. 40 9319 2012.
ISSN: ISSN 0305-1048
PubMed: 22772989
DOI: 10.1093/NAR/GKS660