Magnesium in PDB 1kc7: Pyruvate Phosphate Dikinase with Bound Mg-Phosphonopyruvate

All present enzymatic activity of Pyruvate Phosphate Dikinase with Bound Mg-Phosphonopyruvate:
2.7.9.1;

The structure of Pyruvate Phosphate Dikinase with Bound Mg-Phosphonopyruvate, PDB code: 1kc7 was solved by C.C.Chen, A.Howard, O.Herzberg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.00 / 2.20
Space group	P 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	89.210, 58.420, 102.550, 90.00, 94.99, 90.00
R / Rfree (%)	19.8 / 26.9

The binding sites of Magnesium atom in the Pyruvate Phosphate Dikinase with Bound Mg-Phosphonopyruvate (pdb code 1kc7). 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 Pyruvate Phosphate Dikinase with Bound Mg-Phosphonopyruvate, PDB code: 1kc7:

Magnesium binding site 1 out of 1 in the Pyruvate Phosphate Dikinase with Bound Mg-Phosphonopyruvate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Pyruvate Phosphate Dikinase with Bound Mg-Phosphonopyruvate within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1001 b:7.7 occ:1.00 OD2 A:ASP769 2.0 11.0 1.0 O2 A:PPR1000 2.3 14.0 1.0 OE1 A:GLU745 2.5 12.8 1.0 O2' A:PPR1000 2.5 23.2 1.0 C2 A:PPR1000 3.1 21.7 1.0 CG A:ASP769 3.1 27.5 1.0 C1 A:PPR1000 3.1 11.8 1.0 CD A:GLU745 3.3 10.0 1.0 OE2 A:GLU745 3.7 12.4 1.0 CB A:ASP769 3.8 1.0 1.0 O2P A:PPR1000 4.1 18.7 1.0 OD1 A:ASP620 4.1 8.2 1.0 NH2 A:ARG617 4.1 7.9 1.0 OD1 A:ASP769 4.2 10.7 1.0 CE A:MET743 4.2 30.9 1.0 C3 A:PPR1000 4.3 3.2 1.0 O1 A:PPR1000 4.4 16.5 1.0 CG A:GLU745 4.4 7.0 1.0 N A:ASP769 4.6 1.0 1.0 P A:PPR1000 4.6 20.0 1.0 O3P A:PPR1000 4.7 19.5 1.0 CA A:ASP769 4.8 1.0 1.0 CB A:GLU745 4.9 5.5 1.0 CG A:ASP620 4.9 27.0 1.0 CA A:GLY766 5.0 4.7 1.0

O.Herzberg, C.C.Chen, S.Liu, A.Tempczyk, A.Howard, M.Wei, D.Ye, D.Dunaway-Mariano. Pyruvate Site of Pyruvate Phosphate Dikinase: Crystal Structure of the Enzyme-Phosphonopyruvate Complex, and Mutant Analysis Biochemistry V. 41 780 2002.
ISSN: ISSN 0006-2960
PubMed: 11790099
DOI: 10.1021/BI011799+