Magnesium in PDB 5ers: Gephe in Complex with Mg(2+) - Amp

All present enzymatic activity of Gephe in Complex with Mg(2+) - Amp:
2.10.1.1; 2.7.7.75;

The structure of Gephe in Complex with Mg(2+) - Amp, PDB code: 5ers was solved by V.B.Kasaragod, H.Schindelin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.64 / 1.70
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	87.002, 99.278, 112.791, 90.00, 90.00, 90.00
R / Rfree (%)	15.4 / 17.9

The binding sites of Magnesium atom in the Gephe in Complex with Mg(2+) - Amp (pdb code 5ers). 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 Gephe in Complex with Mg(2+) - Amp, PDB code: 5ers:

Magnesium binding site 1 out of 1 in the Gephe in Complex with Mg(2+) - Amp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Gephe in Complex with Mg(2+) - Amp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg802 b:19.9 occ:1.00 O2P A:AMP801 1.9 21.2 1.0 O A:HOH929 2.0 15.8 1.0 O A:HOH1028 2.1 19.2 1.0 O A:HOH1157 2.1 23.6 1.0 O A:HOH1170 2.1 21.9 1.0 O A:HOH1044 2.2 18.6 1.0 P A:AMP801 3.2 28.5 1.0 H A:GLY573 3.3 20.1 1.0 O5' A:AMP801 3.7 18.8 1.0 HA2 A:GLY507 3.7 19.8 1.0 O1P A:AMP801 3.7 33.9 1.0 H2' A:AMP801 3.8 23.3 1.0 HA3 A:GLY507 3.8 19.8 1.0 OE2 A:GLU509 3.9 18.8 1.0 H8 A:AMP801 3.9 15.5 1.0 N A:GLY573 4.0 16.7 1.0 OE1 A:GLU509 4.0 19.6 1.0 OD1 A:ASP549 4.1 26.4 1.0 HA2 A:GLY573 4.1 23.9 1.0 O A:THR506 4.1 16.3 1.0 CA A:GLY507 4.2 16.5 1.0 HA3 A:GLY572 4.3 17.2 1.0 OD2 A:ASP549 4.4 26.5 1.0 CD A:GLU509 4.4 18.5 1.0 O3P A:AMP801 4.5 30.0 1.0 CA A:GLY573 4.6 19.9 1.0 CG A:ASP549 4.6 26.0 1.0 OD2 A:ASP580 4.7 46.6 1.0 HA2 A:GLY572 4.7 17.2 1.0 OG1 A:THR506 4.8 16.4 1.0 C A:THR506 4.8 15.5 1.0 C2' A:AMP801 4.8 19.4 1.0 C8 A:AMP801 4.8 12.9 1.0 CA A:GLY572 4.8 14.3 1.0 H3' A:AMP801 4.8 25.1 1.0 C A:GLY572 4.8 15.3 1.0 N A:GLY507 4.9 15.7 1.0 HO2' A:AMP801 5.0 24.4 1.0 HA3 A:GLY573 5.0 23.9 1.0 HG1 A:THR506 5.0 19.7 1.0

V.B.Kasaragod, H.Schindelin. Structural Framework For Metal Incorporation During Molybdenum Cofactor Biosynthesis. Structure V. 24 782 2016.
ISSN: ISSN 0969-2126
PubMed: 27112598
DOI: 10.1016/J.STR.2016.02.023