Magnesium in PDB 5mga: Structure of the CPF1 Endonuclease R-Loop Complex After Dna Cleavage

The structure of Structure of the CPF1 Endonuclease R-Loop Complex After Dna Cleavage, PDB code: 5mga was solved by G.Montoya, S.Stella, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.58 / 3.00
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	85.223, 137.652, 320.513, 90.00, 90.00, 90.00
R / Rfree (%)	24.2 / 26.5

The binding sites of Magnesium atom in the Structure of the CPF1 Endonuclease R-Loop Complex After Dna Cleavage (pdb code 5mga). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of the CPF1 Endonuclease R-Loop Complex After Dna Cleavage, PDB code: 5mga:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of the CPF1 Endonuclease R-Loop Complex After Dna Cleavage


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of the CPF1 Endonuclease R-Loop Complex After Dna Cleavage within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg101 b:68.9 occ:1.00 N7 B:A-4 3.3 82.2 1.0 O6 B:G-3 3.4 78.8 1.0 OD1 A:ASN802 3.5 74.2 1.0 N6 B:A-4 3.7 78.0 1.0 C5 B:A-4 3.8 81.2 1.0 N7 B:G-3 3.8 79.5 1.0 C6 B:A-4 4.0 79.0 1.0 C8 B:A-4 4.1 83.8 1.0 C6 B:G-3 4.2 77.2 1.0 CG A:ASN802 4.4 73.9 1.0 C5 B:G-3 4.4 78.5 1.0 ND2 A:ASN802 4.5 73.3 1.0 OP2 B:A-4 4.8 86.3 1.0 C4 B:A-4 4.9 81.9 1.0 N6 B:A-2 5.0 67.9 1.0 C4 B:U-5 5.0 86.2 1.0 C8 B:G-3 5.0 80.0 1.0 C5 B:U-5 5.0 86.9 1.0

Magnesium binding site 2 out of 2 in the Structure of the CPF1 Endonuclease R-Loop Complex After Dna Cleavage


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of the CPF1 Endonuclease R-Loop Complex After Dna Cleavage within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg102 b:89.2 occ:1.00 O4 B:U-8 3.5 0.6 1.0 O2 B:U-5 3.7 88.8 1.0 O2' B:U-5 3.8 93.5 1.0 C1' B:U-5 4.2 91.1 1.0 O6 B:G-9 4.4 0.1 1.0 C2' B:U-5 4.5 90.5 1.0 O2' B:C-11 4.5 0.9 1.0 C2 B:U-5 4.6 88.0 1.0 C4 B:U-8 4.6 0.3 1.0 N1 B:U-5 5.0 89.4 1.0

S.Stella, P.Alcon, G.Montoya. Structure of the CPF1 Endonuclease R-Loop Complex After Target Dna Cleavage. Nature V. 546 559 2017.
ISSN: ISSN 0028-0836
PubMed: 28562584
DOI: 10.1038/NATURE22398