Magnesium in PDB 6grb: Eukaryotic Junction-Resolving Enzyme Gen-1 Binding with Potassium

The structure of Eukaryotic Junction-Resolving Enzyme Gen-1 Binding with Potassium, PDB code: 6grb was solved by D.M.J.Lilley, Y.Liu, D.J.Freeman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	69.23 / 2.40
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	97.960, 97.960, 119.761, 90.00, 90.00, 120.00
R / Rfree (%)	24.7 / 27.3

The binding sites of Magnesium atom in the Eukaryotic Junction-Resolving Enzyme Gen-1 Binding with Potassium (pdb code 6grb). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Eukaryotic Junction-Resolving Enzyme Gen-1 Binding with Potassium, PDB code: 6grb:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Eukaryotic Junction-Resolving Enzyme Gen-1 Binding with Potassium


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Eukaryotic Junction-Resolving Enzyme Gen-1 Binding with Potassium within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg601 b:70.1 occ:1.00 OD2 A:ASP143 1.9 65.0 1.0 OD2 A:ASP141 2.7 72.1 1.0 MG A:MG602 2.8 70.8 1.0 CG A:ASP143 3.2 65.6 1.0 CG A:ASP141 3.5 70.7 1.0 OD1 A:ASP141 3.5 70.3 1.0 OP1 H:DG17 3.6 92.0 1.0 CB A:ASP143 4.0 64.3 1.0 OD1 A:ASP143 4.1 67.0 1.0 OE2 A:GLU140 4.1 72.5 1.0 OE1 A:GLU122 4.6 64.2 1.0 CG A:GLU140 4.7 70.7 1.0 C5' H:DG17 4.7 89.8 1.0 CD A:GLU140 4.8 71.7 1.0 CG A:GLU122 4.9 60.7 1.0 O A:GLY2 4.9 76.8 1.0 CD A:GLU122 4.9 61.8 1.0 P H:DG17 5.0 92.1 1.0 CB A:ASP141 5.0 69.3 1.0

Magnesium binding site 2 out of 2 in the Eukaryotic Junction-Resolving Enzyme Gen-1 Binding with Potassium


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Eukaryotic Junction-Resolving Enzyme Gen-1 Binding with Potassium within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg602 b:70.8 occ:1.00 CG A:GLU122 2.4 60.7 1.0 MG A:MG601 2.8 70.1 1.0 CD A:GLU122 3.1 61.8 1.0 CB A:GLU122 3.3 60.2 1.0 OE1 A:GLU122 3.3 64.2 1.0 OD1 A:ASP141 3.4 70.3 1.0 OD2 A:ASP143 3.4 65.0 1.0 OG A:SER139 3.7 61.0 1.0 OE2 A:GLU140 3.8 72.5 1.0 CB A:ASP143 3.9 64.3 1.0 OE2 A:GLU122 4.0 60.1 1.0 CG A:ASP141 4.1 70.7 1.0 OD2 A:ASP141 4.1 72.1 1.0 CG A:GLU140 4.1 70.7 1.0 CG A:ASP143 4.1 65.6 1.0 OD2 A:ASP38 4.4 57.2 1.0 CD A:GLU140 4.5 71.7 1.0 CA A:GLU122 4.7 57.8 1.0

Y.Liu, A.D.Freeman, A.C.Declais, D.M.J.Lilley. A Monovalent Ion in the Dna Binding Interface of the Eukaryotic Junction-Resolving Enzyme GEN1. Nucleic Acids Res. V. 46 11089 2018.
ISSN: ESSN 1362-4962
PubMed: 30247722
DOI: 10.1093/NAR/GKY863