Magnesium in PDB 9b4q: Crystal Structure of RRAS2 (Ras-Related Protein) Bound to Gmppnp

The structure of Crystal Structure of RRAS2 (Ras-Related Protein) Bound to Gmppnp, PDB code: 9b4q was solved by D.J.Czyzyk, D.K.Simanshu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.52 / 1.46
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	39.299, 62.797, 66.089, 90, 90, 90
R / Rfree (%)	18.2 / 21.6

The binding sites of Magnesium atom in the Crystal Structure of RRAS2 (Ras-Related Protein) Bound to Gmppnp (pdb code 9b4q). 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 RRAS2 (Ras-Related Protein) Bound to Gmppnp, PDB code: 9b4q:

Magnesium binding site 1 out of 1 in the Crystal Structure of RRAS2 (Ras-Related Protein) Bound to Gmppnp


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 RRAS2 (Ras-Related Protein) Bound to Gmppnp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg202 b:19.4 occ:1.00 OG1 A:THR46 2.0 20.5 1.0 O1B A:GNP201 2.0 19.3 1.0 O A:HOH338 2.1 21.0 1.0 O2G A:GNP201 2.1 22.4 1.0 O A:HOH339 2.1 21.2 1.0 OG A:SER28 2.1 20.6 1.0 CB A:THR46 3.0 22.6 1.0 CB A:SER28 3.2 19.2 1.0 PG A:GNP201 3.3 23.2 1.0 PB A:GNP201 3.3 20.7 1.0 N3B A:GNP201 3.6 22.4 1.0 N A:THR46 3.8 21.9 1.0 N A:SER28 3.9 19.9 1.0 CA A:THR46 4.0 24.5 1.0 OD2 A:ASP68 4.0 21.9 1.0 CG2 A:THR46 4.1 22.2 1.0 CA A:SER28 4.1 17.3 1.0 O3G A:GNP201 4.2 23.9 1.0 O A:HOH355 4.2 28.8 1.0 O2A A:GNP201 4.2 21.8 1.0 OD1 A:ASP68 4.2 20.3 1.0 O2B A:GNP201 4.4 21.1 1.0 O1G A:GNP201 4.4 23.0 1.0 O A:ASP44 4.4 22.6 1.0 O A:THR69 4.4 22.7 1.0 O3A A:GNP201 4.4 19.6 1.0 CG A:ASP68 4.5 20.2 1.0 PA A:GNP201 4.6 20.8 1.0 O1A A:GNP201 4.6 21.4 1.0 C A:PRO45 4.7 22.2 1.0 CB A:LYS27 4.8 18.2 1.0 CA A:PRO45 5.0 30.4 1.0 C A:LYS27 5.0 18.4 1.0 CE A:LYS27 5.0 18.6 1.0

D.Czyzyk, W.Yan, S.Messing, W.Gillette, T.Tsuji, M.Yamaguchi, S.Furuzono, D.M.Turner, D.Esposito, D.V.Nissley, F.Mccormick, D.K.Simanshu. Structural Insights Into Isoform-Specific Ras-PI3K Alpha Interactions and the Role of Ras in PI3K Alpha Activation. Nat Commun V. 16 525 2025.
ISSN: ESSN 2041-1723
PubMed: 39788953
DOI: 10.1038/S41467-024-55766-X