Magnesium in PDB 4f0p: Mspji Restriction Endonuclease - P31 Form

The structure of Mspji Restriction Endonuclease - P31 Form, PDB code: 4f0p was solved by J.R.Horton, M.Mabuchi, D.Cohen-Karni, X.Zhang, R.Griggs, M.Samaranayake, R.J.Roberts, Y.Zheng, X.Cheng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.65 / 2.79
Space group	P 31
Cell size a, b, c (Å), α, β, γ (°)	144.948, 144.948, 101.445, 90.00, 90.00, 120.00
R / Rfree (%)	16.4 / 22.1

The binding sites of Magnesium atom in the Mspji Restriction Endonuclease - P31 Form (pdb code 4f0p). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Mspji Restriction Endonuclease - P31 Form, PDB code: 4f0p:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Mspji Restriction Endonuclease - P31 Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Mspji Restriction Endonuclease - P31 Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:55.7 occ:1.00 OD2 A:ASP334 2.0 68.4 1.0 O A:HOH631 2.1 41.4 1.0 OE1 A:GLN355 2.1 30.9 1.0 OD1 A:ASP334 2.2 43.7 1.0 CG A:ASP334 2.4 48.2 1.0 O A:ALA356 2.7 53.9 1.0 CD A:GLN355 3.1 38.4 1.0 O A:HOH646 3.7 42.5 1.0 OD1 A:ASP330 3.7 77.2 1.0 NE2 A:GLN355 3.7 46.6 1.0 C A:ALA356 3.8 41.7 1.0 CB A:ASP334 3.9 38.6 1.0 OE2 A:GLU301 4.0 44.7 1.0 N A:ALA356 4.0 42.2 1.0 CG A:GLN355 4.3 39.4 1.0 CA A:ALA356 4.4 34.2 1.0 O A:HOH647 4.6 33.3 1.0 O A:GLY331 4.7 48.7 1.0 CG A:ASP330 4.7 63.9 1.0 CD A:GLU301 4.7 41.4 1.0 CA A:ASP334 4.8 40.0 1.0 O A:HOH627 4.8 37.4 1.0 CG A:GLU301 4.9 36.5 1.0 N A:LYS357 4.9 31.6 1.0 C A:GLN355 4.9 34.6 1.0 OD2 A:ASP330 5.0 61.8 1.0

Magnesium binding site 2 out of 2 in the Mspji Restriction Endonuclease - P31 Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Mspji Restriction Endonuclease - P31 Form within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg501 b:65.5 occ:1.00 OD2 B:ASP334 2.1 52.3 1.0 OE1 B:GLN355 2.1 75.2 1.0 O B:ALA356 2.3 69.7 1.0 CG B:ASP334 3.0 56.7 1.0 CD B:GLN355 3.2 68.6 1.0 OD1 B:ASP334 3.2 63.5 1.0 C B:ALA356 3.4 50.2 1.0 OE2 B:GLU301 3.5 60.1 1.0 N B:ALA356 3.7 53.6 1.0 NE2 B:GLN355 3.9 68.4 1.0 CA B:ALA356 4.0 42.6 1.0 NH2 B:ARG326 4.1 0.8 1.0 CG B:GLN355 4.2 59.9 1.0 CD B:GLU301 4.3 70.2 1.0 CG B:GLU301 4.3 54.8 1.0 CB B:ALA356 4.3 56.3 1.0 CB B:ASP334 4.3 51.6 1.0 N B:LYS357 4.5 40.1 1.0 OD1 B:ASP330 4.6 91.8 1.0 C B:GLN355 4.7 47.4 1.0 CA B:LYS357 4.9 42.1 1.0 CA B:GLN355 5.0 48.0 1.0

J.R.Horton, M.Y.Mabuchi, D.Cohen-Karni, X.Zhang, R.M.Griggs, M.Samaranayake, R.J.Roberts, Y.Zheng, X.Cheng. Structure and Cleavage Activity of the Tetrameric Mspji Dna Modification-Dependent Restriction Endonuclease. Nucleic Acids Res. V. 40 9763 2012.
ISSN: ISSN 0305-1048
PubMed: 22848107
DOI: 10.1093/NAR/GKS719