Magnesium in PDB 8ztz: Structure of Atp-Dependent Diazotase CMAA6

The structure of Structure of Atp-Dependent Diazotase CMAA6, PDB code: 8ztz was solved by Y.Katsuyama, S.Kawai, Y.Ohnishi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.75 / 2.93
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	93.039, 164.022, 171.859, 90, 90, 90
R / Rfree (%)	18.6 / 25.5

The binding sites of Magnesium atom in the Structure of Atp-Dependent Diazotase CMAA6 (pdb code 8ztz). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structure of Atp-Dependent Diazotase CMAA6, PDB code: 8ztz:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Structure of Atp-Dependent Diazotase CMAA6


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Atp-Dependent Diazotase CMAA6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg601 b:37.4 occ:0.00 OD1 A:ASP449 3.5 37.6 1.0 CG A:ASP449 3.8 37.8 1.0 OD2 A:ASP449 4.1 40.0 1.0 OG1 A:THR461 4.1 29.3 1.0 OE1 A:GLU464 4.3 38.5 1.0 OE2 A:GLU464 4.5 38.2 1.0 CB A:ASP449 4.7 32.7 1.0 OG A:SER460 4.8 33.4 1.0 CD A:GLU464 4.8 42.4 1.0

Magnesium binding site 2 out of 4 in the Structure of Atp-Dependent Diazotase CMAA6


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Atp-Dependent Diazotase CMAA6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg602 b:31.0 occ:0.00 N A:ARG371 3.7 33.1 1.0 CB A:ARG371 4.0 26.8 1.0 CE1 B:PHE334 4.0 27.9 1.0 CG A:ARG371 4.3 29.3 1.0 CA A:ARG371 4.4 36.6 1.0 CD1 B:PHE334 4.5 29.8 1.0 CA A:GLY370 4.5 29.7 1.0 C A:GLY370 4.6 27.9 1.0 CD2 A:TYR442 4.7 33.0 1.0 CE2 A:TYR442 4.8 31.2 1.0 CZ B:PHE334 4.9 33.6 1.0

Magnesium binding site 3 out of 4 in the Structure of Atp-Dependent Diazotase CMAA6


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Atp-Dependent Diazotase CMAA6 within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg602 b:36.8 occ:0.00 O3P D:AMP601 2.7 38.2 0.0 P D:AMP601 3.7 38.7 0.0 O1P D:AMP601 3.9 38.7 0.0 C5' D:AMP601 4.0 38.3 0.0 OE2 D:GLU352 4.1 33.1 1.0 O D:THR429 4.2 40.1 1.0 O D:HOH764 4.2 37.4 1.0 O5' D:AMP601 4.2 38.4 0.0 OE1 D:GLU352 4.3 35.5 1.0 NZ D:LYS204 4.3 37.7 1.0 O3' D:AMP601 4.4 37.1 0.0 C4' D:AMP601 4.4 38.4 0.0 CH2 D:TRP427 4.6 29.0 1.0 CZ2 D:TRP427 4.6 27.0 1.0 CD D:GLU352 4.6 33.8 1.0 CE D:LYS204 4.7 31.4 1.0 OG D:SER350 4.7 40.7 1.0 C3' D:AMP601 4.8 38.2 0.0 CB D:SER196 4.9 36.3 1.0

Magnesium binding site 4 out of 4 in the Structure of Atp-Dependent Diazotase CMAA6


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of Atp-Dependent Diazotase CMAA6 within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg603 b:54.9 occ:0.00 NE2 D:HIS314 2.7 57.8 1.0 OE1 D:GLU464 3.4 55.6 1.0 CE1 D:HIS314 3.6 51.7 1.0 CD2 D:HIS314 3.6 54.0 1.0 OD2 D:ASP476 3.7 65.8 1.0 O D:CYS477 4.3 49.0 1.0 OD1 D:ASP476 4.5 60.7 1.0 CG D:ASP476 4.5 59.7 1.0 CD D:GLU464 4.6 50.2 1.0 ND1 D:HIS314 4.7 49.6 1.0 CG D:HIS314 4.8 50.8 1.0 O D:ALA312 4.9 42.6 1.0

S.Kawai, M.Karasawa, Y.Moriwaki, T.Terada, Y.Katsuyama, Y.Ohnishi. Structural Basis For the Catalytic Mechanism of Atp-Dependent Diazotase CMAA6. Angew.Chem.Int.Ed.Engl. 05851 2025.
ISSN: ESSN 1521-3773
PubMed: 40275441
DOI: 10.1002/ANIE.202505851