Manganese in PDB 9ca1: Human TOP3B-TDRD3 Core Complex in Dna Religation State

All present enzymatic activity of Human TOP3B-TDRD3 Core Complex in Dna Religation State:
5.6.2.1;

The binding sites of Manganese atom in the Human TOP3B-TDRD3 Core Complex in Dna Religation State (pdb code 9ca1). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Human TOP3B-TDRD3 Core Complex in Dna Religation State, PDB code: 9ca1:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Human TOP3B-TDRD3 Core Complex in Dna Religation State


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Human TOP3B-TDRD3 Core Complex in Dna Religation State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn701 b:69.7 occ:1.00 OD2 A:ASP117 2.1 77.6 1.0 O3' D:DA4 2.1 74.9 1.0 OE2 A:GLU9 2.2 77.6 1.0 O1P A:PTR336 2.8 70.1 1.0 OD2 A:ASP119 3.2 78.9 1.0 CG A:ASP117 3.2 77.6 1.0 CD A:GLU9 3.3 77.6 1.0 C3' D:DA4 3.5 74.9 1.0 CB A:ASP117 3.7 77.6 1.0 P A:PTR336 3.7 70.1 1.0 O2P A:PTR336 3.8 70.1 1.0 OE1 A:GLU9 3.8 77.6 1.0 C4' D:DA4 4.0 74.9 1.0 O3P A:PTR336 4.0 70.1 1.0 OD1 A:ASP117 4.3 77.6 1.0 NE2 A:HIS387 4.4 77.6 1.0 C2' D:DA4 4.4 74.9 1.0 CG A:ASP119 4.4 78.9 1.0 CG A:GLU9 4.4 77.6 1.0 C5' D:DA4 4.6 74.9 1.0 CE A:MET10 4.8 73.9 1.0 C5' E:DA5 4.9 74.1 1.0

Manganese binding site 2 out of 2 in the Human TOP3B-TDRD3 Core Complex in Dna Religation State


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Human TOP3B-TDRD3 Core Complex in Dna Religation State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn702 b:83.9 occ:1.00 OD2 A:ASP511 2.1 77.6 1.0 OE1 A:GLU340 2.1 77.6 1.0 CD A:GLU340 3.2 77.6 1.0 CG A:ASP511 3.3 77.6 1.0 OE2 A:GLU340 3.6 77.6 1.0 OD1 A:ASP511 4.1 77.6 1.0 CB A:ASP511 4.2 77.6 1.0 OD1 A:ASP119 4.4 78.9 1.0 OP1 D:DA4 4.4 74.9 1.0 CG A:GLU340 4.4 77.6 1.0 O A:ARG338 4.7 77.6 1.0 N A:ASP511 4.8 77.6 1.0 OD1 A:ASP386 4.8 77.6 1.0 CG A:ASP386 4.8 77.6 1.0 CG A:ASP119 4.8 78.9 1.0

X.Yang, X.Chen, W.Yang, Y.Pommier. Structural Insights Into Human Topoisomerase 3-Beta Dna and Rna Catalytic Cycles and Topo-Gate Dynamics To Be Published.