Magnesium in PDB 4ogc: Crystal Structure of the Type II-C CAS9 Enzyme From Actinomyces Naeslundii

The structure of Crystal Structure of the Type II-C CAS9 Enzyme From Actinomyces Naeslundii, PDB code: 4ogc was solved by F.Jiang, E.Ma, S.Lin, J.A.Doudna, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	68.30 / 2.80
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	74.610, 132.560, 80.040, 90.00, 95.38, 90.00
R / Rfree (%)	19.4 / 23.3

The structure of Crystal Structure of the Type II-C CAS9 Enzyme From Actinomyces Naeslundii also contains other interesting chemical elements:

Manganese	(Mn)	2 atoms
Zinc	(Zn)	1 atom

The binding sites of Magnesium atom in the Crystal Structure of the Type II-C CAS9 Enzyme From Actinomyces Naeslundii (pdb code 4ogc). 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 the Type II-C CAS9 Enzyme From Actinomyces Naeslundii, PDB code: 4ogc:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of the Type II-C CAS9 Enzyme From Actinomyces Naeslundii


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 the Type II-C CAS9 Enzyme From Actinomyces Naeslundii within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1203 b:43.0 occ:1.00 O A:HOH1301 2.1 63.4 1.0 O A:HOH1303 2.1 61.4 1.0 O A:HOH1309 2.1 46.6 1.0 O A:GLN586 2.3 56.6 1.0 O A:GLY590 2.4 56.0 1.0 O A:GLY588 2.5 60.1 1.0 C A:GLN586 3.4 51.8 1.0 C A:GLY590 3.6 51.5 1.0 C A:GLY588 3.7 57.0 1.0 N A:GLY590 3.9 50.3 1.0 N A:GLN586 4.0 52.4 1.0 CA A:GLN586 4.0 48.1 1.0 CB A:GLN586 4.1 49.7 1.0 OG A:SER591 4.2 55.3 1.0 C A:PRO589 4.2 52.8 1.0 CA A:GLY590 4.4 49.6 1.0 N A:GLY588 4.4 51.8 1.0 OE2 A:GLU763 4.4 77.3 1.0 C A:ALA587 4.4 54.5 1.0 N A:ALA587 4.5 53.0 1.0 N A:PRO589 4.6 58.0 1.0 N A:SER591 4.6 46.5 1.0 CA A:PRO589 4.6 55.8 1.0 CA A:GLY588 4.7 49.9 1.0 O A:PRO589 4.7 55.2 1.0 O A:ALA587 4.7 60.6 1.0 CG A:GLN586 4.8 50.3 1.0 CA A:SER591 4.8 48.4 1.0 CA A:ALA587 4.8 54.1 1.0 NE2 A:GLN586 4.9 61.9 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of the Type II-C CAS9 Enzyme From Actinomyces Naeslundii


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 the Type II-C CAS9 Enzyme From Actinomyces Naeslundii within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1204 b:34.3 occ:1.00 OD1 A:ASP581 2.0 39.2 1.0 O A:HOH1307 2.0 69.3 1.0 O A:HOH1304 2.1 64.2 1.0 O A:HOH1306 2.1 41.2 1.0 O A:HOH1305 2.1 81.2 1.0 OD1 A:ASN606 2.5 54.0 1.0 CG A:ASP581 3.2 51.5 1.0 CG A:ASN606 3.4 57.4 1.0 ND2 A:ASN606 3.8 59.7 1.0 O A:SER610 4.0 63.1 1.0 CB A:ASP581 4.0 49.5 1.0 O A:ASN606 4.2 49.4 1.0 OD2 A:ASP581 4.2 47.6 1.0 CA A:ASP581 4.4 46.9 1.0 CB A:ASN606 4.7 51.7 1.0 N A:HIS582 4.9 48.2 1.0 O A:LEU580 4.9 63.2 1.0 C A:SER610 4.9 64.1 1.0 C A:ASN606 4.9 48.5 1.0 CA A:ASN606 4.9 52.9 1.0

M.Jinek, F.Jiang, D.W.Taylor, S.H.Sternberg, E.Kaya, E.Ma, C.Anders, M.Hauer, K.Zhou, S.Lin, M.Kaplan, A.T.Iavarone, E.Charpentier, E.Nogales, J.A.Doudna. Structures of CAS9 Endonucleases Reveal Rna-Mediated Conformational Activation. Science V. 343 47997 2014.
ISSN: ISSN 0036-8075
PubMed: 24505130
DOI: 10.1126/SCIENCE.1247997