Magnesium in PDB 2xzl: UPF1-Rna Complex

All present enzymatic activity of UPF1-Rna Complex:
3.6.4.13;

The structure of UPF1-Rna Complex, PDB code: 2xzl was solved by S.Chakrabarti, U.Jayachandran, F.Bonneau, F.Fiorini, C.Basquin, S.Domcke, H.Le Hir, E.Conti, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.882 / 2.40
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	64.135, 114.117, 65.730, 90.00, 110.24, 90.00
R / Rfree (%)	19.74 / 24.31

The structure of UPF1-Rna Complex also contains other interesting chemical elements:

Zinc	(Zn)	3 atoms
Aluminium	(Al)	1 atom
Fluorine	(F)	4 atoms

The binding sites of Magnesium atom in the UPF1-Rna Complex (pdb code 2xzl). 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 UPF1-Rna Complex, PDB code: 2xzl:

Magnesium binding site 1 out of 1 in the UPF1-Rna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of UPF1-Rna Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1856 b:12.6 occ:1.00 F4 A:ALF1855 2.3 9.5 1.0 OG1 A:THR437 2.4 18.0 1.0 O A:HOH2090 2.5 5.5 1.0 O2B A:ADP1854 2.5 10.2 1.0 O A:HOH2038 2.5 13.7 1.0 O A:HOH2047 2.8 20.1 1.0 CB A:THR437 3.3 12.2 1.0 O1B A:ADP1854 3.7 8.6 1.0 PB A:ADP1854 3.7 6.8 1.0 F2 A:ALF1855 3.7 9.6 1.0 AL A:ALF1855 3.8 8.6 1.0 CA A:GLY767 4.0 8.3 1.0 O1A A:ADP1854 4.0 6.3 1.0 OD2 A:ASP572 4.0 19.8 1.0 O A:GLY767 4.1 9.1 1.0 N A:THR437 4.1 9.3 1.0 CA A:THR437 4.3 14.3 1.0 OD1 A:ASP572 4.3 16.4 1.0 O A:HOH2073 4.3 20.9 1.0 O A:HOH2025 4.4 21.4 1.0 CG2 A:THR437 4.4 12.8 1.0 C A:GLY767 4.5 10.1 1.0 CG A:ASP572 4.5 20.1 1.0 O A:HOH2051 4.5 4.5 1.0 F3 A:ALF1855 4.5 10.3 1.0 O2A A:ADP1854 4.6 8.9 1.0 PA A:ADP1854 4.6 6.8 1.0 O3A A:ADP1854 4.7 14.8 1.0 O A:HOH2042 4.7 23.8 1.0 O3B A:ADP1854 4.7 9.9 1.0

S.Chakrabarti, U.Jayachandran, F.Bonneau, F.Fiorini, C.Basquin, S.Domcke, H.Le Hir, E.Conti. Molecular Mechanisms For the Rna-Dependent Atpase Activity of UPF1 and Its Regulation By UPF2. Mol.Cell V. 41 693 2011.
ISSN: ISSN 1097-2765
PubMed: 21419344
DOI: 10.1016/J.MOLCEL.2011.02.010