Magnesium in PDB 2erx: Crystal Structure of DIRAS2 in Complex with Gdp and Inorganic Phosphate

The structure of Crystal Structure of DIRAS2 in Complex with Gdp and Inorganic Phosphate, PDB code: 2erx was solved by E.Papagrigoriou, X.Yang, J.Elkins, F.E.Niesen, N.Burgess, E.Salah, O.Fedorov, L.J.Ball, F.Von Delft, M.Sundstrom, A.Edwards, C.Arrowsmith, J.Weigelt, D.Doyle, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.32 / 1.65
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	55.041, 74.931, 85.691, 90.00, 90.00, 90.00
R / Rfree (%)	16.2 / 18.8

The binding sites of Magnesium atom in the Crystal Structure of DIRAS2 in Complex with Gdp and Inorganic Phosphate (pdb code 2erx). 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 DIRAS2 in Complex with Gdp and Inorganic Phosphate, PDB code: 2erx:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of DIRAS2 in Complex with Gdp and Inorganic Phosphate


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 DIRAS2 in Complex with Gdp and Inorganic Phosphate within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg403 b:14.2 occ:1.00 O2 A:PO4402 2.0 21.7 1.0 O A:HOH494 2.0 14.9 1.0 O3B A:GDP401 2.1 14.3 1.0 O A:HOH495 2.1 15.2 1.0 OG1 A:THR39 2.1 17.6 1.0 OG A:SER21 2.1 17.4 1.0 CB A:THR39 3.2 20.1 1.0 CB A:SER21 3.2 15.8 1.0 PB A:GDP401 3.3 15.5 1.0 P A:PO4402 3.4 20.9 1.0 O2B A:GDP401 3.6 17.3 1.0 N A:SER21 3.9 17.1 1.0 O4 A:PO4402 4.0 22.0 1.0 N A:THR39 4.0 18.8 1.0 OD2 A:ASP61 4.1 22.8 1.0 O1A A:GDP401 4.1 16.4 1.0 CA A:SER21 4.1 15.2 1.0 O1 A:PO4402 4.2 23.9 1.0 O A:HOH442 4.2 16.8 1.0 CG2 A:THR39 4.2 22.9 1.0 OD1 A:ASP61 4.2 24.3 1.0 CA A:THR39 4.2 16.0 1.0 O A:ILE37 4.4 19.3 1.0 O3A A:GDP401 4.4 14.6 1.0 O1B A:GDP401 4.4 16.2 1.0 O3 A:PO4402 4.5 19.8 1.0 O A:THR62 4.5 24.6 1.0 CG A:ASP61 4.5 21.7 1.0 PA A:GDP401 4.7 14.9 1.0 CE A:LYS20 4.7 21.6 1.0 NZ A:LYS20 4.7 18.9 1.0 C A:PRO38 4.8 19.2 1.0 CB A:LYS20 4.8 18.0 1.0 O2A A:GDP401 4.9 15.5 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of DIRAS2 in Complex with Gdp and Inorganic Phosphate


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 DIRAS2 in Complex with Gdp and Inorganic Phosphate within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg403 b:16.0 occ:1.00 O4 B:PO4402 2.0 22.8 1.0 O B:HOH477 2.0 17.8 1.0 O3B B:GDP401 2.1 13.8 1.0 OG B:SER21 2.1 16.3 1.0 O B:HOH483 2.1 18.5 1.0 OG1 B:THR39 2.1 19.0 1.0 CB B:THR39 3.2 21.9 1.0 CB B:SER21 3.2 18.1 1.0 PB B:GDP401 3.4 14.8 1.0 P B:PO4402 3.5 21.6 1.0 O2B B:GDP401 3.7 20.3 1.0 O2 B:PO4402 3.9 23.1 1.0 N B:SER21 4.0 15.1 1.0 N B:THR39 4.0 19.2 1.0 OD2 B:ASP61 4.1 21.9 1.0 CA B:SER21 4.1 15.9 1.0 O1A B:GDP401 4.1 17.0 1.0 O3 B:PO4402 4.1 21.6 1.0 CG2 B:THR39 4.2 18.4 1.0 OD1 B:ASP61 4.2 23.7 1.0 CA B:THR39 4.2 17.6 1.0 O A:HOH440 4.2 20.2 1.0 O1B B:GDP401 4.3 14.4 1.0 O3A B:GDP401 4.4 15.2 1.0 O1 B:PO4402 4.4 26.7 1.0 O B:ILE37 4.5 18.7 1.0 O B:THR62 4.5 23.5 1.0 CG B:ASP61 4.6 21.7 1.0 PA B:GDP401 4.6 15.4 1.0 NZ B:LYS20 4.8 20.2 1.0 CE B:LYS20 4.8 19.8 1.0 C B:PRO38 4.8 18.5 1.0 O2A B:GDP401 4.9 16.6 1.0 CB B:LYS20 4.9 16.4 1.0

E.Papagrigoriou, X.Yang, J.Elkins, F.E.Niesen, N.Burgess, E.Salah, O.Fedorov, L.J.Ball, F.Von Delft, M.Sundstrom, A.Edwards, C.Arrowsmith, J.Weigelt, D.Doyle. Crystal Structure of DIRAS2 To Be Published.