Magnesium in PDB 4fm9: Human Topoisomerase II Alpha Bound to Dna

All present enzymatic activity of Human Topoisomerase II Alpha Bound to Dna:
5.99.1.3;

The structure of Human Topoisomerase II Alpha Bound to Dna, PDB code: 4fm9 was solved by T.J.Wendorff, B.H.Schmidt, P.Heslop, C.A.Austin, J.M.Berger, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.61 / 2.90
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	85.918, 215.081, 128.650, 90.00, 90.00, 90.00
R / Rfree (%)	22.7 / 27

The binding sites of Magnesium atom in the Human Topoisomerase II Alpha Bound to Dna (pdb code 4fm9). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Human Topoisomerase II Alpha Bound to Dna, PDB code: 4fm9:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Human Topoisomerase II Alpha Bound to Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Human Topoisomerase II Alpha Bound to Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1201 b:35.9 occ:1.00 OD2 A:ASP543 2.0 37.8 1.0 O C:HOH202 2.1 53.0 1.0 O A:HOH1327 2.2 59.1 1.0 O A:HOH1301 2.3 31.8 1.0 OD2 A:ASP541 3.0 52.2 1.0 CG A:ASP543 3.2 49.7 1.0 O A:LYS614 3.7 69.6 1.0 CG A:ASP541 3.9 48.4 1.0 OP1 C:DG13 4.0 54.9 1.0 OD1 A:ASP543 4.1 68.5 1.0 CB A:ASP543 4.1 25.1 1.0 CB A:ASP541 4.2 51.6 1.0 C5' C:DG13 4.5 33.4 1.0 O A:HOH1328 4.5 34.4 1.0 OE2 A:GLU461 4.8 45.5 1.0 O3' C:DG13 4.8 44.2 1.0 C A:LYS614 4.9 51.3 1.0 OE1 A:GLU461 4.9 34.3 1.0 OD1 A:ASP541 4.9 60.1 1.0

Magnesium binding site 2 out of 2 in the Human Topoisomerase II Alpha Bound to Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Human Topoisomerase II Alpha Bound to Dna within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg101 b:52.0 occ:1.00 O4 D:DT10 4.2 77.2 1.0 O6 C:DG7 4.3 77.1 1.0 O6 D:DG9 4.4 61.3 1.0 N6 C:DA8 4.5 54.4 1.0 N7 C:DG7 4.7 74.7 1.0 N7 D:DG9 4.8 56.3 1.0 C6 C:DG7 5.0 71.2 1.0

T.J.Wendorff, B.H.Schmidt, P.Heslop, C.A.Austin, J.M.Berger. The Structure of Dna-Bound Human Topoisomerase II Alpha: Conformational Mechanisms For Coordinating Inter-Subunit Interactions with Dna Cleavage. J.Mol.Biol. V. 424 109 2012.
ISSN: ISSN 0022-2836
PubMed: 22841979
DOI: 10.1016/J.JMB.2012.07.014