Magnesium in PDB 1v8s: Crystal Structure Analusis of the Adp-Ribose Pyrophosphatase Complexed with Amp and Mg

All present enzymatic activity of Crystal Structure Analusis of the Adp-Ribose Pyrophosphatase Complexed with Amp and Mg:
3.6.1.13;

The structure of Crystal Structure Analusis of the Adp-Ribose Pyrophosphatase Complexed with Amp and Mg, PDB code: 1v8s was solved by S.Yoshiba, T.Ooga, N.Nakagawa, T.Shibata, Y.Inoue, S.Yokoyama, S.Kuramitsu, R.Masui, Riken Structural Genomics/Proteomics Initiative (Rsgi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.80 / 2.20
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	49.740, 49.740, 118.120, 90.00, 90.00, 120.00
R / Rfree (%)	19.9 / 24.8

The binding sites of Magnesium atom in the Crystal Structure Analusis of the Adp-Ribose Pyrophosphatase Complexed with Amp and Mg (pdb code 1v8s). 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 Analusis of the Adp-Ribose Pyrophosphatase Complexed with Amp and Mg, PDB code: 1v8s:

Magnesium binding site 1 out of 1 in the Crystal Structure Analusis of the Adp-Ribose Pyrophosphatase Complexed with Amp and Mg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure Analusis of the Adp-Ribose Pyrophosphatase Complexed with Amp and Mg within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg301 b:32.7 occ:1.00 O5' A:AMP619 2.3 68.2 1.0 O1P A:AMP619 2.4 69.8 1.0 P A:AMP619 2.6 70.3 1.0 O2P A:AMP619 3.0 70.2 1.0 C5' A:AMP619 3.0 64.6 1.0 N A:LEU68 3.0 15.4 1.0 O A:HOH651 3.4 36.6 1.0 CA A:GLY67 3.5 15.1 1.0 C A:GLY67 3.8 13.7 1.0 CB A:LEU68 3.8 17.0 1.0 OE1 A:GLU82 3.9 23.9 1.0 CA A:LEU68 4.0 16.2 1.0 O3P A:AMP619 4.1 69.8 1.0 CD1 A:LEU68 4.1 19.2 1.0 C4' A:AMP619 4.3 61.5 1.0 CG A:LEU68 4.4 20.8 1.0 O A:HOH644 4.4 20.4 1.0 CD2 A:LEU68 4.5 18.4 1.0 O A:LEU68 4.7 14.2 1.0 CD A:GLU82 4.8 20.9 1.0 C A:LEU68 4.9 16.1 1.0 N A:GLY67 4.9 13.1 1.0 C3' A:AMP619 4.9 60.3 1.0 O A:GLY67 5.0 15.8 1.0 O A:ALA66 5.0 15.2 1.0

S.Yoshiba, T.Ooga, N.Nakagawa, T.Shibata, Y.Inoue, S.Yokoyama, S.Kuramitsu, R.Masui. Structural Insights Into the Thermus Thermophilus Adp-Ribose Pyrophosphatase Mechanism Via Crystal Structures with the Bound Substrate and Metal J.Biol.Chem. V. 279 37163 2004.
ISSN: ISSN 0021-9258
PubMed: 15210687
DOI: 10.1074/JBC.M403817200