Magnesium in PDB 5gvd: Human TDRD3 DUF1767-Ob Domains

The structure of Human TDRD3 DUF1767-Ob Domains, PDB code: 5gvd was solved by S.Goto-Ito, A.Yamagata, Y.Sato, T.S.Takahashi, S.Fukai, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.83 / 1.62
Space group	P 65
Cell size a, b, c (Å), α, β, γ (°)	85.669, 85.669, 104.207, 90.00, 90.00, 120.00
R / Rfree (%)	17.5 / 19.9

The binding sites of Magnesium atom in the Human TDRD3 DUF1767-Ob Domains (pdb code 5gvd). 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 Human TDRD3 DUF1767-Ob Domains, PDB code: 5gvd:

Magnesium binding site 1 out of 1 in the Human TDRD3 DUF1767-Ob Domains


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Human TDRD3 DUF1767-Ob Domains within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg205 b:37.1 occ:1.00 O4 B:PO4201 2.7 23.1 1.0 P B:PO4201 3.7 20.8 1.0 O2 B:PO4201 3.9 20.7 1.0 CE1 B:HIS0 4.0 18.2 1.0 O3 B:PO4201 4.0 20.7 1.0 ND1 B:HIS0 4.1 16.7 1.0 NE2 B:HIS0 5.0 16.8 1.0 O1 B:PO4201 5.0 25.6 1.0

S.Goto-Ito, A.Yamagata, T.S.Takahashi, Y.Sato, S.Fukai. Structural Basis of the Interaction Between Topoisomerase III Beta and the TDRD3 Auxiliary Factor Sci Rep V. 7 42123 2017.
ISSN: ESSN 2045-2322
PubMed: 28176834
DOI: 10.1038/SREP42123