Magnesium in PDB 5t9j: Crystal Structure of Human GEN1 in Complex with Holliday Junction Dna in the Upper Interface

The structure of Crystal Structure of Human GEN1 in Complex with Holliday Junction Dna in the Upper Interface, PDB code: 5t9j was solved by S.-H.Lee, C.Biertumpfel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	75.29 / 3.00
Space group	P 32
Cell size a, b, c (Å), α, β, γ (°)	86.940, 86.940, 200.724, 90.00, 90.00, 120.00
R / Rfree (%)	19.9 / 24.1

The binding sites of Magnesium atom in the Crystal Structure of Human GEN1 in Complex with Holliday Junction Dna in the Upper Interface (pdb code 5t9j). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Human GEN1 in Complex with Holliday Junction Dna in the Upper Interface, PDB code: 5t9j:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Human GEN1 in Complex with Holliday Junction Dna in the Upper Interface


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Human GEN1 in Complex with Holliday Junction Dna in the Upper Interface within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg608 b:0.1 occ:1.00 OE2 A:GLU134 2.0 0.6 1.0 OE1 A:GLU134 2.1 0.1 1.0 CD A:GLU134 2.3 0.6 1.0 OE1 A:GLU75 3.7 1.0 1.0 CG A:GLU134 3.8 0.5 1.0 ND2 A:ASN30 3.8 83.5 1.0 N A:ALA135 3.9 92.0 1.0 CB A:ALA135 4.2 74.3 1.0 CD A:GLU75 4.2 0.3 1.0 OD1 A:ASN30 4.3 68.9 1.0 CG A:ASN30 4.5 63.8 1.0 CG A:GLU75 4.5 0.1 1.0 CA A:GLU134 4.6 0.5 1.0 CB A:GLU134 4.6 0.9 1.0 CA A:ALA135 4.7 78.6 1.0 CB A:SER32 4.7 80.9 1.0 C A:GLU134 4.8 94.9 1.0 CB A:GLU75 4.8 89.8 1.0 OG A:SER32 4.8 84.8 1.0 N A:GLU136 5.0 78.9 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Human GEN1 in Complex with Holliday Junction Dna in the Upper Interface


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Human GEN1 in Complex with Holliday Junction Dna in the Upper Interface within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg606 b:0.8 occ:1.00 OE1 B:GLU134 2.1 0.2 1.0 OE2 B:GLU134 2.2 0.8 1.0 OE2 B:GLU75 2.3 0.1 1.0 CD B:GLU134 2.4 0.6 1.0 CD B:GLU75 3.5 0.6 1.0 N B:ALA135 3.5 76.0 1.0 CG B:GLU134 3.8 0.3 1.0 CB B:GLU75 3.8 82.6 1.0 CB B:ALA135 4.0 79.7 1.0 CA B:GLU134 4.2 93.0 1.0 CG B:GLU75 4.3 80.0 1.0 C B:GLU134 4.4 90.5 1.0 CA B:ALA135 4.4 75.0 1.0 CB B:GLU134 4.4 99.8 1.0 OE1 B:GLU75 4.4 95.4 1.0 OH B:TYR209 4.6 0.6 1.0 ND2 B:ASN30 4.6 89.3 1.0 OG B:SER32 4.7 78.8 1.0 OD1 B:ASN30 4.8 68.6 1.0 CB B:SER32 4.9 65.7 1.0

S.H.Lee, L.N.Princz, M.F.Klugel, B.Habermann, B.Pfander, C.Biertumpfel. Human Holliday Junction Resolvase GEN1 Uses A Chromodomain For Efficient Dna Recognition and Cleavage. Elife V. 4 2015.
ISSN: ESSN 2050-084X
PubMed: 26682650
DOI: 10.7554/ELIFE.12256