Magnesium in PDB 3ltn: Inhibitor-Stabilized Topoisomerase IV-Dna Cleavage Complex (S. Pneumoniae)

The structure of Inhibitor-Stabilized Topoisomerase IV-Dna Cleavage Complex (S. Pneumoniae), PDB code: 3ltn was solved by I.Laponogov, X.-S.Pan, D.A.Veselkov, K.E.Mcauley, L.M.Fisher, M.R.Sanderson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.13 / 3.10
Space group	P 32
Cell size a, b, c (Å), α, β, γ (°)	122.507, 122.507, 178.303, 90.00, 90.00, 120.00
R / Rfree (%)	18.6 / 22.8

The structure of Inhibitor-Stabilized Topoisomerase IV-Dna Cleavage Complex (S. Pneumoniae) also contains other interesting chemical elements:

Fluorine

(F)

2 atoms

The binding sites of Magnesium atom in the Inhibitor-Stabilized Topoisomerase IV-Dna Cleavage Complex (S. Pneumoniae) (pdb code 3ltn). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Inhibitor-Stabilized Topoisomerase IV-Dna Cleavage Complex (S. Pneumoniae), PDB code: 3ltn:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Inhibitor-Stabilized Topoisomerase IV-Dna Cleavage Complex (S. Pneumoniae)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Inhibitor-Stabilized Topoisomerase IV-Dna Cleavage Complex (S. Pneumoniae) within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg742 b:81.3 occ:1.00 OD2 C:ASP508 2.2 0.4 1.0 OD2 C:ASP506 2.6 0.8 1.0 CG C:ASP508 3.3 1.0 1.0 CG C:ASP506 3.6 0.3 1.0 OD1 C:ASP508 3.8 0.0 1.0 OP1 E:DT15 3.9 91.1 1.0 CB C:ASP506 4.1 0.1 1.0 O C:LYS581 4.1 78.1 1.0 OE1 C:GLU433 4.4 0.2 1.0 CB C:ASP508 4.5 91.9 1.0 C5' E:DT15 4.6 78.7 1.0 OD1 C:ASP506 4.7 1.0 1.0

Magnesium binding site 2 out of 2 in the Inhibitor-Stabilized Topoisomerase IV-Dna Cleavage Complex (S. Pneumoniae)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Inhibitor-Stabilized Topoisomerase IV-Dna Cleavage Complex (S. Pneumoniae) within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg742 b:81.5 occ:1.00 OD2 D:ASP508 2.2 0.4 1.0 OD2 D:ASP506 2.6 0.2 1.0 CG D:ASP508 3.3 0.2 1.0 CG D:ASP506 3.6 0.7 1.0 OD1 D:ASP508 3.8 0.0 1.0 OP1 G:DT15 4.0 86.3 1.0 CB D:ASP506 4.1 0.0 1.0 O D:LYS581 4.1 78.0 1.0 OE1 D:GLU433 4.3 0.6 1.0 CB D:ASP508 4.5 95.8 1.0 C5' G:DT15 4.6 75.5 1.0 OD1 D:ASP506 4.7 0.7 1.0

I.Laponogov, X.-S.Pan, D.A.Veselkov, K.E.Mcauley, L.M.Fisher, M.R.Sanderson. Structural Basis of Gate-Dna Breakage and Resealing By Type II Topoisomerases Plos One V. 5 E1133 2010.
ISSN: ESSN 1932-6203
PubMed: 20596531
DOI: 10.1371/JOURNAL.PONE.0011338