Magnesium in PDB 6e6f: Kras G13D Bound to Gppnhp (K13GNP)

The structure of Kras G13D Bound to Gppnhp (K13GNP), PDB code: 6e6f was solved by C.W.Johnson, C.Mattos, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.10 / 3.40
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	114.486, 39.096, 89.319, 90.00, 124.37, 90.00
R / Rfree (%)	18.2 / 25.8

The binding sites of Magnesium atom in the Kras G13D Bound to Gppnhp (K13GNP) (pdb code 6e6f). 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 Kras G13D Bound to Gppnhp (K13GNP), PDB code: 6e6f:

Magnesium binding site 1 out of 1 in the Kras G13D Bound to Gppnhp (K13GNP)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Kras G13D Bound to Gppnhp (K13GNP) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg202 b:35.1 occ:1.00 OG A:SER17 2.0 40.2 1.0 O2B A:GNP201 2.2 32.4 1.0 O2G A:GNP201 2.6 41.5 1.0 CB A:SER17 3.1 38.0 1.0 N A:SER17 3.2 30.5 1.0 PB A:GNP201 3.3 23.2 1.0 OD2 A:ASP57 3.3 40.8 1.0 PG A:GNP201 3.6 51.1 1.0 CA A:SER17 3.7 31.9 1.0 O1B A:GNP201 3.7 24.0 1.0 OD1 A:ASP57 3.9 45.5 1.0 N3B A:GNP201 3.9 33.6 1.0 CB A:LYS16 3.9 32.6 1.0 CG A:ASP57 4.0 43.8 1.0 O A:THR58 4.1 38.9 1.0 O1G A:GNP201 4.1 37.1 1.0 CE A:LYS16 4.2 26.4 1.0 C A:LYS16 4.3 31.4 1.0 CE2 A:TYR32 4.3 49.9 1.0 C A:THR58 4.3 43.8 1.0 O3A A:GNP201 4.5 30.1 1.0 CG A:LYS16 4.5 25.7 1.0 CA A:LYS16 4.5 33.3 1.0 CD A:LYS16 4.6 28.5 1.0 CD2 A:TYR32 4.6 50.1 1.0 O1A A:GNP201 4.7 25.8 1.0 N A:LYS16 4.7 26.8 1.0 O2A A:GNP201 4.8 33.5 1.0 PA A:GNP201 4.9 29.9 1.0 O3G A:GNP201 4.9 44.5 1.0

C.W.Johnson, Y.J.Lin, D.Reid, J.Parker, S.Pavlopoulos, P.Dischinger, C.Graveel, A.J.Aguirre, M.Steensma, K.M.Haigis, C.Mattos. Isoform-Specific Destabilization of the Active Site Reveals A Molecular Mechanism of Intrinsic Activation of Kras G13D. Cell Rep V. 28 1538 2019.
ISSN: ESSN 2211-1247
PubMed: 31390567
DOI: 10.1016/J.CELREP.2019.07.026