Magnesium in PDB 8azy: Kras-G12D in Complex with Bi-2865

The structure of Kras-G12D in Complex with Bi-2865, PDB code: 8azy was solved by J.Boettcher, L.Herdeis, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.76 / 1.09
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	87.158, 40.545, 55.943, 90, 90, 90
R / Rfree (%)	16.4 / 19.7

The binding sites of Magnesium atom in the Kras-G12D in Complex with Bi-2865 (pdb code 8azy). 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-G12D in Complex with Bi-2865, PDB code: 8azy:

Magnesium binding site 1 out of 1 in the Kras-G12D in Complex with Bi-2865


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Kras-G12D in Complex with Bi-2865 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg202 b:8.8 occ:1.00 O2B A:GDP201 2.0 8.9 1.0 O A:HOH337 2.1 10.3 1.0 O A:HOH380 2.1 9.1 1.0 OG A:SER17 2.1 8.7 1.0 O A:HOH350 2.1 10.7 1.0 O A:HOH326 2.1 9.4 1.0 HB2 A:SER17 3.2 9.7 1.0 CB A:SER17 3.2 8.0 1.0 PB A:GDP201 3.3 9.2 1.0 H A:SER17 3.3 9.5 1.0 HA A:PRO34 3.5 14.6 1.0 O3B A:GDP201 3.5 10.1 1.0 HD2 A:TYR32 3.8 13.8 1.0 HB3 A:SER17 3.9 9.7 1.0 N A:SER17 3.9 7.8 1.0 HB2 A:ALA59 3.9 18.3 1.0 HB2 A:LYS16 4.0 10.5 1.0 CA A:SER17 4.1 7.6 1.0 OD1 A:ASP57 4.1 11.3 1.0 O1A A:GDP201 4.1 10.3 1.0 O A:PRO34 4.2 12.0 1.0 OD2 A:ASP57 4.2 12.8 1.0 HE2 A:LYS16 4.3 14.0 1.0 O3A A:GDP201 4.3 9.5 1.0 O1B A:GDP201 4.4 9.1 1.0 CA A:PRO34 4.4 12.1 1.0 O A:ASP33 4.4 10.5 1.0 HA A:SER17 4.4 9.2 1.0 O A:ILE36 4.5 11.6 1.0 HB1 A:ALA59 4.5 18.3 1.0 O A:THR58 4.5 10.9 1.0 PA A:GDP201 4.6 9.5 1.0 CG A:ASP57 4.6 11.2 1.0 C A:PRO34 4.6 11.7 1.0 HB3 A:TYR32 4.6 13.0 1.0 O2A A:GDP201 4.7 9.8 1.0 CB A:ALA59 4.7 15.2 1.0 HZ3 A:LYS16 4.7 13.3 1.0 CD2 A:TYR32 4.7 11.5 1.0 O A:TYR32 4.7 11.2 1.0 O A:HOH301 4.8 24.1 1.0 CB A:LYS16 5.0 8.7 1.0 C A:LYS16 5.0 7.7 1.0

D.Kim, L.Herdeis, D.Rudolph, Y.Zhao, J.Bottcher, A.Vides, C.I.Ayala-Santos, Y.Pourfarjam, A.Cuevas-Navarro, J.Y.Xue, A.Mantoulidis, J.Broker, T.Wunberg, O.Schaaf, J.Popow, B.Wolkerstorfer, K.G.Kropatsch, R.Qu, E.De Stanchina, B.Sang, C.Li, D.B.Mcconnell, N.Kraut, P.Lito. Pan-Kras Inhibitor Disables Oncogenic Signalling and Tumour Growth. Nature 2023.
ISSN: ESSN 1476-4687
PubMed: 37258666
DOI: 10.1038/S41586-023-06123-3