Magnesium in PDB 9ki0: Structure of Ddmd Dimer with Ssdna with Ags

The binding sites of Magnesium atom in the Structure of Ddmd Dimer with Ssdna with Ags (pdb code 9ki0). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of Ddmd Dimer with Ssdna with Ags, PDB code: 9ki0:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of Ddmd Dimer with Ssdna with Ags


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Ddmd Dimer with Ssdna with Ags within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1302 b:36.2 occ:1.00 O3G A:AGS1301 2.1 59.8 1.0 OD1 A:ASP272 2.4 46.0 1.0 OG1 A:THR56 2.5 41.5 1.0 CG A:ASP272 3.1 43.7 1.0 OD2 A:ASP272 3.1 44.5 1.0 O2B A:AGS1301 3.5 49.1 1.0 PG A:AGS1301 3.6 69.0 1.0 CB A:THR56 3.7 37.8 1.0 OE2 A:GLU273 3.7 48.0 1.0 O2G A:AGS1301 4.4 49.9 1.0 CB A:ASP272 4.5 31.5 1.0 N A:THR56 4.5 31.1 1.0 O3B A:AGS1301 4.5 52.3 1.0 CA A:THR56 4.5 32.8 1.0 PB A:AGS1301 4.6 38.9 1.0 O2A A:AGS1301 4.6 51.3 1.0 CG2 A:THR56 4.7 35.4 1.0 CG2 A:ILE542 4.7 39.4 1.0 S1G A:AGS1301 4.8 59.7 1.0 CD A:GLU273 4.8 46.0 1.0 CA A:GLY739 4.8 39.4 1.0 OH A:TYR90 4.9 34.1 1.0

Magnesium binding site 2 out of 2 in the Structure of Ddmd Dimer with Ssdna with Ags


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Ddmd Dimer with Ssdna with Ags within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1302 b:30.9 occ:1.00 O3G B:AGS1301 2.0 58.9 1.0 OG1 B:THR56 2.4 40.5 1.0 OD1 B:ASP272 2.5 43.6 1.0 CG B:ASP272 3.1 44.5 1.0 OD2 B:ASP272 3.1 43.7 1.0 PG B:AGS1301 3.5 73.0 1.0 O1B B:AGS1301 3.6 50.7 1.0 OE2 B:GLU273 3.7 44.7 1.0 CB B:THR56 3.8 35.9 1.0 O2G B:AGS1301 4.3 45.8 1.0 CB B:ASP272 4.4 29.1 1.0 CG2 B:ILE542 4.5 36.9 1.0 O3B B:AGS1301 4.5 52.3 1.0 S1G B:AGS1301 4.5 53.8 1.0 CG2 B:THR56 4.5 29.2 1.0 PB B:AGS1301 4.7 36.9 1.0 CA B:THR56 4.7 33.1 1.0 CD B:GLU273 4.7 46.2 1.0 N B:THR56 4.7 33.9 1.0 CA B:GLY739 4.9 38.4 1.0 CG B:GLU273 5.0 34.6 1.0

R.Li, Y.Liu, H.Gao, Z.Lin. A Gate-Clamp Mechanism For Ssdna Translocation By Ddmd in Vibrio Cholerae Plasmid Defense. Nucleic Acids Res. V. 53 2025.
ISSN: ESSN 1362-4962
PubMed: 39907109
DOI: 10.1093/NAR/GKAF064