Magnesium in PDB 4i2i: Binary Complex of Mouse Tdt with AP5A

All present enzymatic activity of Binary Complex of Mouse Tdt with AP5A:
2.7.7.31;

The structure of Binary Complex of Mouse Tdt with AP5A, PDB code: 4i2i was solved by J.Gouge, M.Delarue, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	22.10 / 2.50
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	46.750, 84.100, 103.890, 90.00, 90.00, 90.00
R / Rfree (%)	19.5 / 24

The structure of Binary Complex of Mouse Tdt with AP5A also contains other interesting chemical elements:

Zinc

(Zn)

7 atoms

The binding sites of Magnesium atom in the Binary Complex of Mouse Tdt with AP5A (pdb code 4i2i). 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 Binary Complex of Mouse Tdt with AP5A, PDB code: 4i2i:

Magnesium binding site 1 out of 1 in the Binary Complex of Mouse Tdt with AP5A


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Binary Complex of Mouse Tdt with AP5A within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg609 b:62.2 occ:1.00 OD1 A:ASP343 2.2 45.4 1.0 OD2 A:ASP345 2.3 37.1 1.0 O2E A:AP5601 2.5 70.2 1.0 O A:HOH730 2.7 30.0 1.0 O3G A:AP5601 2.8 94.8 1.0 O2G A:AP5601 3.0 0.6 1.0 CG A:ASP345 3.2 32.8 1.0 CG A:ASP343 3.3 41.2 1.0 O3D A:AP5601 3.4 79.9 1.0 PD A:AP5601 3.4 88.8 1.0 ZN A:ZN602 3.4 44.7 1.0 PE A:AP5601 3.4 72.2 1.0 PG A:AP5601 3.4 0.1 1.0 OD1 A:ASP345 3.5 38.4 1.0 O1D A:AP5601 3.7 87.8 1.0 OD2 A:ASP343 3.8 46.6 1.0 O A:ASP343 4.0 31.1 1.0 O A:HOH703 4.2 25.6 1.0 O5J A:AP5601 4.2 76.1 1.0 O1G A:AP5601 4.2 0.2 1.0 C8B A:AP5601 4.3 85.2 1.0 C A:ASP343 4.3 30.8 1.0 O A:HOH747 4.4 46.5 1.0 N7B A:AP5601 4.5 85.2 1.0 CB A:ASP345 4.5 25.0 1.0 CB A:ASP343 4.6 33.6 1.0 N A:GLY333 4.6 21.9 1.0 CA A:GLY332 4.6 20.6 1.0 O1E A:AP5601 4.6 71.8 1.0 O A:HOH800 4.7 34.2 1.0 N A:ASP345 4.7 22.6 1.0 N A:ASP343 4.8 32.9 1.0 CA A:ASP343 4.8 31.5 1.0 N A:VAL344 4.8 25.5 1.0 O2D A:AP5601 4.8 88.9 1.0 O3B A:AP5601 4.8 0.2 1.0 C A:VAL344 5.0 26.1 1.0

J.Gouge, S.Rosario, F.Romain, P.Beguin, M.Delarue. Structures of Intermediates Along the Catalytic Cycle of Terminal Deoxynucleotidyltransferase: Dynamical Aspects of the Two-Metal Ion Mechanism. J.Mol.Biol. V. 425 4334 2013.
ISSN: ISSN 0022-2836
PubMed: 23856622
DOI: 10.1016/J.JMB.2013.07.009