Magnesium in PDB 2ybd: Crystal Structure of Probable Had Family Hydrolase From Pseudomonas Fluorescens Pf-5 with Bound Phosphate

The structure of Crystal Structure of Probable Had Family Hydrolase From Pseudomonas Fluorescens Pf-5 with Bound Phosphate, PDB code: 2ybd was solved by M.W.Vetting, Y.Patskovsky, R.Toro, J.Freeman, S.Miller, J.M.Sauder, S.K.Burley, D.Dunaway-Mariano, K.N.Allen, J.A.Gerlt, S.C.Almo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	32.99 / 2.00
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	65.978, 65.978, 250.400, 90.00, 90.00, 120.00
R / Rfree (%)	17.1 / 21.8

The binding sites of Magnesium atom in the Crystal Structure of Probable Had Family Hydrolase From Pseudomonas Fluorescens Pf-5 with Bound Phosphate (pdb code 2ybd). 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 Probable Had Family Hydrolase From Pseudomonas Fluorescens Pf-5 with Bound Phosphate, PDB code: 2ybd:

Magnesium binding site 1 out of 1 in the Crystal Structure of Probable Had Family Hydrolase From Pseudomonas Fluorescens Pf-5 with Bound 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 Probable Had Family Hydrolase From Pseudomonas Fluorescens Pf-5 with Bound Phosphate within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1198 b:36.7 occ:1.00 O A:ASP14 2.6 26.9 1.0 OD2 A:ASP12 2.6 21.3 1.0 O1 A:PO41199 2.8 29.1 1.0 OD1 A:ASP152 2.9 29.3 1.0 CG A:ASP12 3.5 18.3 1.0 C A:ASP14 3.8 19.0 1.0 OD2 A:ASP156 4.0 20.3 1.0 OD1 A:ASP12 4.0 17.8 1.0 CG A:ASP152 4.1 24.8 1.0 CB A:TYR153 4.2 13.9 1.0 P A:PO41199 4.3 39.7 1.0 CE1 A:PHE155 4.4 30.7 1.0 CA A:GLY15 4.4 14.3 1.0 CZ A:PHE155 4.4 31.7 1.0 OD2 A:ASP152 4.5 27.1 1.0 N A:GLY15 4.5 16.4 1.0 CB A:ASP12 4.6 15.2 1.0 CB A:ASP14 4.7 30.3 1.0 CA A:ASP14 4.7 20.9 1.0 O3 A:PO41199 4.9 49.7 1.0 CG A:TYR153 4.9 22.2 1.0 CG A:ASP156 4.9 19.5 1.0 C A:GLY15 4.9 16.9 1.0 OG1 A:THR16 5.0 15.7 1.0

M.W.Vetting, Y.Patskovsky, R.Toro, J.Freeman, S.Miller, J.M.Sauder, S.K.Burley, D.Dunaway-Mariano, K.N.Allen, J.A.Gerlt, S.C.Almo. Crystal Structure of Probable Had Family Hydrolase From Pseudomonas Fluorescens Pf-5 with Bound Phosphate To Be Published.