Magnesium in PDB 6g1p: Apo Form of Adp-Ribosylserine Hydrolase ARH3 of Latimeria Chalumnae

The structure of Apo Form of Adp-Ribosylserine Hydrolase ARH3 of Latimeria Chalumnae, PDB code: 6g1p was solved by A.Ariza, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	73.21 / 1.55
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	64.957, 99.882, 107.626, 90.00, 90.00, 90.00
R / Rfree (%)	14.5 / 16.3

The binding sites of Magnesium atom in the Apo Form of Adp-Ribosylserine Hydrolase ARH3 of Latimeria Chalumnae (pdb code 6g1p). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Apo Form of Adp-Ribosylserine Hydrolase ARH3 of Latimeria Chalumnae, PDB code: 6g1p:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Apo Form of Adp-Ribosylserine Hydrolase ARH3 of Latimeria Chalumnae


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Apo Form of Adp-Ribosylserine Hydrolase ARH3 of Latimeria Chalumnae within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg401 b:16.8 occ:1.00 O A:HOH523 2.3 23.3 1.0 O A:HOH742 2.3 25.3 1.0 OD1 A:ASP64 2.3 14.6 1.0 OD2 A:ASP305 2.3 21.2 1.0 OD1 A:ASP63 2.4 15.9 1.0 OG1 A:THR62 2.4 14.8 1.0 O A:HOH508 3.2 15.6 1.0 CB A:THR62 3.3 14.5 1.0 CG A:ASP63 3.4 16.0 1.0 CG A:ASP64 3.5 14.1 1.0 CG A:ASP305 3.5 23.1 1.0 OE1 A:GLU33 3.9 23.0 0.6 OD2 A:ASP63 3.9 18.4 1.0 CG2 A:THR62 4.0 15.4 1.0 N A:ASP64 4.1 13.3 1.0 N A:ASP63 4.1 14.2 1.0 OD1 A:ASP305 4.2 28.3 1.0 OD1 A:ASP26 4.2 15.4 1.0 OD2 A:ASP64 4.2 14.6 1.0 O A:HOH515 4.3 35.2 1.0 OG1 A:THR306 4.3 14.6 1.0 CB A:ASP64 4.4 13.7 1.0 CA A:THR62 4.6 14.6 1.0 CB A:ASP305 4.6 20.8 1.0 CB A:ASP63 4.6 15.3 1.0 C A:THR62 4.7 14.2 1.0 CA A:ASP63 4.7 14.7 1.0 O A:GLY101 4.7 18.4 1.0 O A:HOH771 4.8 32.5 1.0 C A:ASP63 4.8 13.9 1.0 CA A:ASP64 4.9 13.6 1.0 OE2 A:GLU33 4.9 19.8 0.4 CD A:GLU33 4.9 21.6 0.6 O A:HOH589 5.0 18.4 1.0

Magnesium binding site 2 out of 2 in the Apo Form of Adp-Ribosylserine Hydrolase ARH3 of Latimeria Chalumnae


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Apo Form of Adp-Ribosylserine Hydrolase ARH3 of Latimeria Chalumnae within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg401 b:17.5 occ:1.00 OD2 B:ASP305 2.2 19.0 0.5 O B:HOH554 2.3 26.2 1.0 O B:HOH735 2.3 25.1 1.0 OD1 B:ASP64 2.3 15.4 1.0 OD1 B:ASP63 2.3 17.9 1.0 OG1 B:THR62 2.4 15.8 1.0 OD2 B:ASP305 2.4 15.4 0.5 CG B:ASP305 3.2 17.2 0.5 O B:HOH505 3.2 19.6 1.0 CB B:THR62 3.3 15.2 1.0 CG B:ASP63 3.4 17.9 1.0 CG B:ASP64 3.5 14.6 1.0 CG B:ASP305 3.6 16.3 0.5 OD1 B:ASP305 3.8 18.6 0.5 OE1 B:GLU33 3.9 18.2 0.4 CG2 B:THR62 3.9 15.5 1.0 OD2 B:ASP63 4.0 21.4 1.0 N B:ASP64 4.0 13.9 1.0 N B:ASP63 4.0 14.9 1.0 CB B:ASP305 4.1 16.3 0.5 O B:HOH530 4.2 38.8 1.0 OD1 B:ASP26 4.2 14.2 1.0 OD1 B:ASP305 4.3 19.8 0.5 OD2 B:ASP64 4.3 14.1 1.0 OG1 B:THR306 4.5 13.9 1.0 CB B:ASP64 4.5 14.0 1.0 CA B:THR62 4.5 14.9 1.0 CB B:ASP63 4.6 16.4 1.0 CB B:ASP305 4.6 15.5 0.5 C B:THR62 4.6 14.8 1.0 CA B:ASP63 4.7 15.1 1.0 O B:GLY101 4.7 19.2 1.0 C B:ASP63 4.8 13.8 1.0 CA B:ASP64 4.8 13.6 1.0 O B:HOH755 4.9 35.8 1.0 CD B:GLU33 5.0 18.2 0.4

J.G.M.Rack, A.Ariza, B.S.Drown, C.Henfrey, E.Bartlett, T.Shirai, P.J.Hergenrother, I.Ahel. (Adp-Ribosyl)Hydrolases: Structural Basis For Differential Substrate Recognition and Inhibition. Cell Chem Biol V. 25 1533 2018.
ISSN: ESSN 2451-9448
PubMed: 30472116
DOI: 10.1016/J.CHEMBIOL.2018.11.001