Magnesium in PDB 5x9s: Crystal Structure of Fully Modified H-Ras-Gppnhp

The structure of Crystal Structure of Fully Modified H-Ras-Gppnhp, PDB code: 5x9s was solved by S.Matsumoto, H.Ke, Y.Murashima, H.Taniguchi-Tamura, R.Miyamoto, Y.Yoshikawa, T.Kumasaka, E.Mizohata, H.Edamatsu, T.Kataoka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.68 / 2.50
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	88.475, 88.475, 134.047, 90.00, 90.00, 120.00
R / Rfree (%)	18.4 / 23.6

The structure of Crystal Structure of Fully Modified H-Ras-Gppnhp also contains other interesting chemical elements:

Calcium

(Ca)

3 atoms

The binding sites of Magnesium atom in the Crystal Structure of Fully Modified H-Ras-Gppnhp (pdb code 5x9s). 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 Fully Modified H-Ras-Gppnhp, PDB code: 5x9s:

Magnesium binding site 1 out of 1 in the Crystal Structure of Fully Modified H-Ras-Gppnhp


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 Fully Modified H-Ras-Gppnhp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg201 b:3.5 occ:1.00 O A:HOH310 1.9 19.4 1.0 O A:HOH308 1.9 11.1 1.0 OG1 A:THR35 2.0 19.2 1.0 O2B A:GNP205 2.0 14.2 1.0 O1G A:GNP205 2.0 14.4 1.0 OG A:SER17 2.0 11.0 1.0 CB A:THR35 3.0 19.8 1.0 PG A:GNP205 3.2 14.4 1.0 PB A:GNP205 3.2 14.6 1.0 CB A:SER17 3.2 11.4 1.0 N3B A:GNP205 3.3 14.9 1.0 N A:THR35 3.8 21.9 1.0 OD2 A:ASP57 3.9 20.0 1.0 N A:SER17 4.0 11.8 1.0 CA A:THR35 4.0 20.9 1.0 CG2 A:THR35 4.1 19.4 1.0 O2A A:GNP205 4.1 14.5 1.0 O1B A:GNP205 4.1 14.5 1.0 O3G A:GNP205 4.1 14.1 1.0 OD1 A:ASP57 4.1 20.4 1.0 CA A:SER17 4.2 11.7 1.0 O A:ASP33 4.3 21.8 1.0 O3A A:GNP205 4.3 14.5 1.0 O2G A:GNP205 4.4 15.1 1.0 CG A:ASP57 4.4 20.1 1.0 PA A:GNP205 4.5 14.7 1.0 O A:THR58 4.5 20.4 1.0 O1A A:GNP205 4.6 14.3 1.0 C A:PRO34 4.7 22.6 1.0 CB A:LYS16 4.9 11.4 1.0

H.Ke, S.Matsumoto, Y.Murashima, H.Taniguchi-Tamura, R.Miyamoto, Y.Yoshikawa, C.Tsuda, T.Kumasaka, E.Mizohata, H.Edamatsu, T.Kataoka. Structural Basis For Intramolecular Interaction of Post-Translationally Modified H-Rasgtp Prepared By Protein Ligation Febs Lett. V. 591 2470 2017.
ISSN: ISSN 1873-3468
PubMed: 28730604
DOI: 10.1002/1873-3468.12759