Magnesium in PDB 1kk3: Structure of the Wild-Type Large Gamma Subunit of Initiation Factor EIF2 From Pyrococcus Abyssi Complexed with Gdp-MG2+

The structure of Structure of the Wild-Type Large Gamma Subunit of Initiation Factor EIF2 From Pyrococcus Abyssi Complexed with Gdp-MG2+, PDB code: 1kk3 was solved by E.Schmitt, S.Blanquet, Y.Mechulam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.60 / 1.90
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	52.150, 85.050, 57.640, 90.00, 109.61, 90.00
R / Rfree (%)	21.5 / 23

The structure of Structure of the Wild-Type Large Gamma Subunit of Initiation Factor EIF2 From Pyrococcus Abyssi Complexed with Gdp-MG2+ also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Magnesium atom in the Structure of the Wild-Type Large Gamma Subunit of Initiation Factor EIF2 From Pyrococcus Abyssi Complexed with Gdp-MG2+ (pdb code 1kk3). 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 Structure of the Wild-Type Large Gamma Subunit of Initiation Factor EIF2 From Pyrococcus Abyssi Complexed with Gdp-MG2+, PDB code: 1kk3:

Magnesium binding site 1 out of 1 in the Structure of the Wild-Type Large Gamma Subunit of Initiation Factor EIF2 From Pyrococcus Abyssi Complexed with Gdp-MG2+


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of the Wild-Type Large Gamma Subunit of Initiation Factor EIF2 From Pyrococcus Abyssi Complexed with Gdp-MG2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg413 b:20.5 occ:1.00 OG1 A:THR24 2.0 18.5 1.0 O3B A:GDP412 2.0 23.5 1.0 O A:HOH1099 2.1 19.2 1.0 O A:HOH1091 2.2 25.1 1.0 O A:HOH1090 2.2 18.9 1.0 O A:HOH1096 2.3 21.0 1.0 CB A:THR24 3.2 18.0 1.0 PB A:GDP412 3.3 20.3 1.0 O1B A:GDP412 3.6 22.5 1.0 N A:THR24 3.9 15.8 1.0 CA A:THR24 4.1 16.3 1.0 O2A A:GDP412 4.1 20.4 1.0 OD2 A:ASP89 4.1 23.4 1.0 CG2 A:THR24 4.2 19.1 1.0 O2B A:GDP412 4.3 19.9 1.0 OD1 A:ASP89 4.3 22.1 1.0 O3A A:GDP412 4.3 23.7 1.0 O A:HOH1153 4.5 32.6 1.0 O A:HOH1193 4.5 37.7 1.0 O A:ALA90 4.5 35.0 1.0 O A:PRO91 4.6 44.8 1.0 O A:HOH1152 4.6 40.8 1.0 PA A:GDP412 4.6 20.9 1.0 CG A:ASP89 4.7 23.2 1.0 O1A A:GDP412 4.9 19.3 1.0 CB A:LYS23 4.9 14.4 1.0 CE A:LYS23 4.9 15.7 1.0 C A:LYS23 5.0 15.4 1.0

E.Schmitt, S.Blanquet, Y.Mechulam. The Large Subunit of Initiation Factor AIF2 Is A Close Structural Homologue of Elongation Factors. Embo J. V. 21 1821 2002.
ISSN: ISSN 0261-4189
PubMed: 11927566
DOI: 10.1093/EMBOJ/21.7.1821