Magnesium in PDB 8h18: Crystal Structure of Dnaq Domain of Streptococcus Thermophilus Strain Dgcc 7710

The structure of Crystal Structure of Dnaq Domain of Streptococcus Thermophilus Strain Dgcc 7710, PDB code: 8h18 was solved by Q.Chen, Y.Yu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.51 / 1.50
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	96.298, 96.298, 61.455, 90, 90, 120
R / Rfree (%)	17.6 / 20.1

The binding sites of Magnesium atom in the Crystal Structure of Dnaq Domain of Streptococcus Thermophilus Strain Dgcc 7710 (pdb code 8h18). 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 Dnaq Domain of Streptococcus Thermophilus Strain Dgcc 7710, PDB code: 8h18:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Dnaq Domain of Streptococcus Thermophilus Strain Dgcc 7710


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 Dnaq Domain of Streptococcus Thermophilus Strain Dgcc 7710 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:17.4 occ:1.00 OD2 A:ASP135 2.3 12.4 1.0 OD2 A:ASP279 2.3 15.6 1.0 OE2 A:GLU137 2.5 22.1 1.0 MG A:MG403 2.7 50.0 1.0 HB2 A:ASP279 3.0 10.9 1.0 CG A:ASP135 3.1 15.6 1.0 CG A:ASP279 3.2 16.3 1.0 OD1 A:ASP135 3.2 18.3 1.0 O A:HOH541 3.3 31.1 1.0 HG2 A:GLU137 3.4 15.1 1.0 CB A:ASP279 3.4 9.1 1.0 HB3 A:ASP279 3.5 10.9 1.0 CD A:GLU137 3.5 12.3 1.0 O A:HOH569 3.5 24.1 1.0 O A:HOH514 3.5 28.4 1.0 HA A:HIS274 3.5 17.4 1.0 HA A:ALA276 3.5 10.0 1.0 O A:ILE136 3.6 8.2 1.0 CG A:GLU137 3.9 12.5 1.0 O A:ARG275 4.2 11.6 1.0 OD1 A:ASP279 4.3 15.8 1.0 O A:HOH653 4.3 35.0 1.0 O A:HOH522 4.3 22.3 1.0 CA A:HIS274 4.4 14.5 1.0 C A:ARG275 4.4 10.9 1.0 C A:ILE136 4.4 6.5 1.0 CA A:ALA276 4.4 8.3 1.0 HG3 A:GLU137 4.4 15.1 1.0 C A:HIS274 4.4 15.1 1.0 N A:ARG275 4.4 13.6 1.0 H A:ARG275 4.5 16.4 1.0 OE1 A:GLU137 4.5 18.4 1.0 CB A:ASP135 4.5 8.6 1.0 N A:ALA276 4.6 8.7 1.0 HB3 A:ASP135 4.7 10.3 1.0 HA A:GLU137 4.7 9.0 1.0 H A:ILE136 4.7 7.2 1.0 H A:ASP279 4.9 11.9 1.0 N A:ILE136 4.9 5.9 1.0 CA A:ASP279 4.9 8.1 1.0 CA A:ARG275 4.9 11.2 1.0 HB3 A:HIS274 4.9 23.3 1.0 N A:GLU137 5.0 6.3 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Dnaq Domain of Streptococcus Thermophilus Strain Dgcc 7710


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 Dnaq Domain of Streptococcus Thermophilus Strain Dgcc 7710 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg403 b:50.0 occ:1.00 O A:HOH522 2.1 22.3 1.0 O A:HOH653 2.3 35.0 1.0 O A:HOH541 2.5 31.1 1.0 MG A:MG402 2.7 17.4 1.0 O A:ILE136 3.2 8.2 1.0 OD1 A:ASP135 3.3 18.3 1.0 O A:HOH514 3.3 28.4 1.0 O A:HOH576 3.5 22.7 1.0 O A:HOH569 3.6 24.1 1.0 OD2 A:ASP135 3.6 12.4 1.0 OE2 A:GLU137 3.8 22.1 1.0 CG A:ASP135 3.8 15.6 1.0 O A:HOH657 4.0 36.0 1.0 H A:ILE136 4.1 7.2 1.0 O A:HOH590 4.3 13.9 1.0 C A:ILE136 4.4 6.5 1.0 OD2 A:ASP279 4.4 15.6 1.0 CD A:GLU137 4.5 12.3 1.0 HE2 A:PHE219 4.6 12.4 1.0 OD1 A:ASP220 4.6 9.6 1.0 HD2 A:PHE219 4.7 11.4 1.0 HA A:GLU137 4.7 9.0 1.0 N A:ILE136 4.7 5.9 1.0 O A:HOH551 4.9 20.3 1.0 OE1 A:GLU137 5.0 18.4 1.0 HG13 A:ILE136 5.0 7.2 1.0 HG2 A:GLU137 5.0 15.1 1.0

D.Tang, T.Jia, Y.Luo, B.Mou, J.Cheng, S.Qi, S.Yao, Z.Su, Y.Yu, Q.Chen. Dnaq Mediates Directional Spacer Acquisition in the Crispr-Cas System By A Time-Dependent Mechanism Innovation (N Y) V. 4 2023.
ISSN: ESSN 2666-6758
DOI: 10.1016/J.XINN.2023.100495