Magnesium in PDB 9c1a: Crystal Structure of Gdp-Bound Human M-Ras Protein in Crystal Form I

All present enzymatic activity of Crystal Structure of Gdp-Bound Human M-Ras Protein in Crystal Form I:
3.6.5.2;

The structure of Crystal Structure of Gdp-Bound Human M-Ras Protein in Crystal Form I, PDB code: 9c1a was solved by S.M.Bester, R.Abrahamsen, L.R.Samora, W.-I.Wu, T.-C.Mou, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	54.33 / 1.96
Space group	P 6 2 2
Cell size a, b, c (Å), α, β, γ (°)	108.653, 108.653, 65.759, 90, 90, 120
R / Rfree (%)	17.2 / 20

The binding sites of Magnesium atom in the Crystal Structure of Gdp-Bound Human M-Ras Protein in Crystal Form I (pdb code 9c1a). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Gdp-Bound Human M-Ras Protein in Crystal Form I, PDB code: 9c1a:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Gdp-Bound Human M-Ras Protein in Crystal Form I


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 Gdp-Bound Human M-Ras Protein in Crystal Form I within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg201 b:21.3 occ:1.00 OG A:SER27 2.1 16.8 1.0 O A:HOH318 2.1 16.2 1.0 O2B A:GDP202 2.1 21.3 1.0 O A:HOH344 2.1 19.2 1.0 O A:HOH351 2.2 19.4 1.0 O A:HOH312 2.2 21.8 1.0 CB A:SER27 3.1 17.8 1.0 PB A:GDP202 3.4 17.0 1.0 O3B A:GDP202 3.6 19.6 1.0 N A:SER27 3.9 16.7 1.0 OD2 A:ASP67 4.0 25.1 1.0 CA A:SER27 4.1 19.5 1.0 O1A A:GDP202 4.2 19.2 1.0 OD1 A:ASP67 4.2 26.1 1.0 O A:ASP43 4.2 24.8 1.0 CD2 A:TYR42 4.3 17.0 1.0 O A:PRO44 4.3 29.9 1.0 O1B A:GDP202 4.4 17.9 1.0 O3A A:GDP202 4.4 17.9 1.0 CA A:PRO44 4.5 24.9 1.0 O A:ILE46 4.5 20.3 1.0 CG A:ASP67 4.5 30.5 1.0 CB A:ALA69 4.5 24.8 1.0 O A:THR68 4.6 21.3 1.0 PA A:GDP202 4.6 18.2 1.0 C A:PRO44 4.6 21.4 1.0 O2A A:GDP202 4.7 17.8 1.0 CE2 A:TYR42 4.8 23.3 1.0 O A:HOH326 4.9 21.8 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Gdp-Bound Human M-Ras Protein in Crystal Form I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Gdp-Bound Human M-Ras Protein in Crystal Form I within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg206 b:21.9 occ:1.00 O A:HOH431 2.0 38.3 1.0 O A:HOH470 2.2 32.8 1.0 O A:HOH375 2.2 32.9 1.0 O A:HOH373 2.3 32.3 1.0 O A:LYS36 2.5 22.4 1.0 C A:LYS36 3.6 21.9 1.0 CB A:LYS36 4.3 25.7 1.0 O A:HOH382 4.5 33.8 1.0 CA A:LYS36 4.5 20.5 1.0 N A:ILE37 4.5 17.9 1.0 OD1 A:ASP159 4.5 30.2 1.0 CA A:ILE37 4.6 15.6 1.0 OE1 A:GLN32 4.7 24.0 1.0 OD2 A:ASP159 4.7 46.0 1.0 CG2 A:ILE37 4.9 27.8 1.0 CG A:ASP159 4.9 36.8 1.0

S.M.Bester, R.Abrahamsen, L.Rodrigues Samora, W.I.Wu, T.C.Mou. Crystal Structure of the Gdp-Bound Human M-Ras Protein in Two Crystal Forms. Acta Crystallogr.,Sect.F 2024.
ISSN: ESSN 2053-230X
PubMed: 39196705
DOI: 10.1107/S2053230X24007969