Magnesium in PDB 8z8y: Crystal Structure of Crtago/Crttir-Apaz Complex

The structure of Crystal Structure of Crtago/Crttir-Apaz Complex, PDB code: 8z8y was solved by R.Hu, J.Chen, L.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.61 / 3.18
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	198.36, 198.36, 184.35, 90, 90, 120
R / Rfree (%)	27.4 / 29.9

The binding sites of Magnesium atom in the Crystal Structure of Crtago/Crttir-Apaz Complex (pdb code 8z8y). 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 Crtago/Crttir-Apaz Complex, PDB code: 8z8y:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Crtago/Crttir-Apaz Complex


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 Crtago/Crttir-Apaz Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg601 b:33.9 occ:1.00 CB A:SER109 2.5 92.5 1.0 OG A:SER109 3.3 95.0 1.0 CA A:SER109 3.4 82.5 1.0 N A:THR110 3.5 72.2 1.0 ND1 A:HIS111 3.8 63.0 1.0 C A:SER109 3.8 76.0 1.0 CE1 A:TYR200 4.0 67.2 1.0 OH A:TYR200 4.1 82.8 1.0 N A:HIS111 4.3 61.5 1.0 CZ A:TYR200 4.5 70.2 1.0 CA A:THR110 4.6 67.1 1.0 CE1 A:HIS111 4.6 69.2 1.0 CD A:LYS170 4.6 94.3 1.0 CB A:THR110 4.6 61.5 1.0 N A:SER109 4.8 69.0 1.0 CB A:LYS170 4.8 97.8 1.0 O A:SER109 4.8 72.8 1.0 CG A:HIS111 4.9 54.9 1.0 OG1 A:THR110 4.9 60.7 1.0 CG A:LYS170 4.9 86.4 1.0 CD1 A:TYR200 5.0 64.8 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Crtago/Crttir-Apaz Complex


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 Crtago/Crttir-Apaz Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg501 b:93.8 occ:1.00 OD2 B:ASP442 1.5 122.4 1.0 OXT A:ILE507 1.9 113.1 1.0 NZ A:LYS211 2.2 98.7 1.0 CG B:ASP442 2.3 126.8 1.0 O A:ILE507 2.6 114.0 1.0 CB B:ASP442 2.6 120.4 1.0 C A:ILE507 2.7 112.3 1.0 NZ A:LYS263 3.1 88.5 1.0 N A:ILE223 3.4 80.2 1.0 OD1 B:ASP442 3.4 136.5 1.0 CE A:LYS211 3.7 89.4 1.0 OE1 A:GLN222 3.8 100.7 1.0 NE2 A:HIS207 3.8 116.1 1.0 CA A:GLN222 4.0 75.3 1.0 CB A:ILE223 4.1 75.4 1.0 C A:GLN222 4.1 75.0 1.0 CA B:ASP442 4.2 132.1 1.0 O A:THR221 4.2 82.8 1.0 CA A:ILE223 4.2 74.0 1.0 CA A:ILE507 4.3 103.7 1.0 O A:ILE223 4.3 84.7 1.0 CG1 A:ILE223 4.4 71.8 1.0 CD A:GLN222 4.4 89.2 1.0 CE A:LYS263 4.5 77.5 1.0 CG A:GLN222 4.5 78.6 1.0 CD2 A:HIS207 4.5 98.6 1.0 CD A:LYS211 4.6 96.0 1.0 CB A:GLN222 4.8 70.2 1.0 C A:ILE223 4.8 76.1 1.0 O B:ASP442 4.8 138.1 1.0 N B:ASP442 4.8 131.2 1.0 CE1 A:HIS207 4.9 104.5 1.0 N A:GLN222 4.9 76.2 1.0 C A:THR221 5.0 71.1 1.0

R.Hu, C.Guo, X.Liu, Y.Lin, Z.Yang, Z.Li, Y.Yang, E.Ma, Y.Li, J.Chen, L.Liu. Structural Basis of Ssdna-Guided Nadase Activation of Prokaryotic Sparta System. Nucleic Acids Res. V. 53 2025.
ISSN: ESSN 1362-4962
PubMed: 39997222
DOI: 10.1093/NAR/GKAF110