Magnesium in PDB 4l8g: Crystal Structure of K-Ras G12C, Gdp-Bound

The structure of Crystal Structure of K-Ras G12C, Gdp-Bound, PDB code: 4l8g was solved by J.M.Ostrem, U.Peters, M.L.Sos, J.A.Wells, K.M.Shokat, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.73 / 1.52
Space group	P 63
Cell size a, b, c (Å), α, β, γ (°)	82.146, 82.146, 39.513, 90.00, 90.00, 120.00
R / Rfree (%)	14.8 / 18

The structure of Crystal Structure of K-Ras G12C, Gdp-Bound also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Magnesium atom in the Crystal Structure of K-Ras G12C, Gdp-Bound (pdb code 4l8g). 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 Crystal Structure of K-Ras G12C, Gdp-Bound, PDB code: 4l8g:

Magnesium binding site 1 out of 1 in the Crystal Structure of K-Ras G12C, Gdp-Bound


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of K-Ras G12C, Gdp-Bound within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg202 b:13.2 occ:1.00 O1B A:GDP201 2.1 14.7 1.0 O A:HOH314 2.2 19.4 1.0 O A:HOH309 2.2 20.0 1.0 OG A:SER17 2.2 16.6 1.0 O A:HOH305 2.3 19.6 1.0 O A:HOH349 2.3 16.9 1.0 HB2 A:SER17 3.3 19.4 1.0 CB A:SER17 3.3 16.2 1.0 H A:SER17 3.3 17.4 1.0 PB A:GDP201 3.4 14.3 1.0 HA A:PRO34 3.4 24.6 1.0 O2B A:GDP201 3.6 15.6 1.0 HD2 A:TYR32 3.7 24.3 1.0 HB2 A:LYS16 3.9 17.4 1.0 N A:SER17 4.0 14.5 1.0 HB3 A:SER17 4.0 19.4 1.0 HE2 A:LYS16 4.1 21.6 1.0 HB2 A:ALA59 4.1 41.4 1.0 OD2 A:ASP57 4.2 24.2 1.0 O1A A:GDP201 4.2 16.7 1.0 CA A:SER17 4.2 14.7 1.0 CA A:PRO34 4.3 20.5 1.0 OD1 A:ASP57 4.4 21.0 1.0 O3B A:GDP201 4.4 14.3 1.0 O3A A:GDP201 4.4 13.5 1.0 CD2 A:TYR32 4.5 20.2 1.0 O A:ASP33 4.5 17.4 1.0 O A:ILE36 4.5 23.6 1.0 HA A:SER17 4.5 17.7 1.0 O A:PRO34 4.5 26.8 1.0 HB3 A:TYR32 4.5 19.1 1.0 O A:THR58 4.6 22.4 1.0 PA A:GDP201 4.6 14.8 1.0 HZ1 A:LYS16 4.7 20.1 1.0 CG A:ASP57 4.7 22.7 1.0 C A:PRO34 4.8 24.3 1.0 O2A A:GDP201 4.8 15.1 1.0 HB1 A:ALA59 4.8 41.4 1.0 HZ3 A:LYS16 4.8 20.1 1.0 HA A:ALA59 4.8 36.1 1.0 O A:TYR32 4.8 18.0 1.0 CB A:LYS16 4.8 14.5 1.0 CB A:ALA59 4.8 34.5 1.0 CE A:LYS16 4.9 18.0 1.0 HB3 A:PRO34 4.9 24.6 1.0

J.M.Ostrem, U.Peters, M.L.Sos, J.A.Wells, K.M.Shokat. K-Ras(G12C) Inhibitors Allosterically Control Gtp Affinity and Effector Interactions. Nature V. 503 548 2013.
ISSN: ISSN 0028-0836
PubMed: 24256730
DOI: 10.1038/NATURE12796