Magnesium in PDB 2bek: Structure of the Bacterial Chromosome Segregation Protein Soj

The structure of Structure of the Bacterial Chromosome Segregation Protein Soj, PDB code: 2bek was solved by T.A.Leonard, P.J.G.Butler, J.Lowe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 1.80
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	87.434, 95.908, 123.943, 90.00, 90.00, 90.00
R / Rfree (%)	18.2 / 21.6

The binding sites of Magnesium atom in the Structure of the Bacterial Chromosome Segregation Protein Soj (pdb code 2bek). 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 the Bacterial Chromosome Segregation Protein Soj, PDB code: 2bek:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Structure of the Bacterial Chromosome Segregation Protein Soj


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of the Bacterial Chromosome Segregation Protein Soj within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:13.2 occ:1.00 O A:HOH2174 2.1 8.5 1.0 OG1 A:THR21 2.1 11.2 1.0 O3G A:ATP500 2.1 9.7 1.0 O A:HOH2312 2.1 9.2 1.0 O A:HOH2064 2.2 11.0 1.0 O2B A:ATP500 2.4 12.1 1.0 CB A:THR21 3.2 11.7 1.0 PB A:ATP500 3.2 11.4 1.0 PG A:ATP500 3.3 8.7 1.0 O3B A:ATP500 3.4 7.0 1.0 O A:HOH2062 3.7 42.0 1.0 N A:THR21 3.8 8.7 1.0 O A:HOH2065 4.0 19.0 1.0 O1G A:ATP500 4.0 9.1 1.0 OD2 A:ASP118 4.0 13.3 1.0 CA A:THR21 4.1 9.6 1.0 O A:HOH2061 4.2 15.6 1.0 OD1 A:ASP118 4.2 14.5 1.0 O3A A:ATP500 4.2 8.2 1.0 ND2 A:ASN48 4.3 7.9 1.0 CG2 A:THR21 4.3 9.8 1.0 O2A A:ATP500 4.4 11.6 1.0 O2G A:ATP500 4.4 9.3 1.0 CB A:LYS20 4.5 8.1 1.0 CG A:ASP118 4.5 14.6 1.0 CE A:LYS20 4.6 7.2 1.0 O1B A:ATP500 4.6 17.8 1.0 CB A:ASN48 4.6 11.7 1.0 O A:ALA119 4.6 13.6 1.0 PA A:ATP500 4.7 9.4 1.0 O1A A:ATP500 4.8 9.6 1.0 C A:LYS20 4.8 10.0 1.0 CG A:ASN48 5.0 14.4 1.0

Magnesium binding site 2 out of 4 in the Structure of the Bacterial Chromosome Segregation Protein Soj


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of the Bacterial Chromosome Segregation Protein Soj within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg501 b:10.1 occ:1.00 O B:HOH2071 2.0 7.7 1.0 O B:HOH2023 2.0 9.4 1.0 O B:HOH2189 2.1 7.4 1.0 OG1 B:THR21 2.1 9.7 1.0 O3G B:ATP500 2.2 9.1 1.0 O2B B:ATP500 2.4 11.6 1.0 PB B:ATP500 3.2 10.2 1.0 CB B:THR21 3.2 6.3 1.0 PG B:ATP500 3.3 9.4 1.0 O3B B:ATP500 3.4 5.9 1.0 N B:THR21 3.8 6.5 1.0 O B:HOH2068 3.8 42.0 1.0 O B:HOH2070 4.0 19.9 1.0 O1G B:ATP500 4.0 8.5 1.0 CA B:THR21 4.1 5.3 1.0 OD2 B:ASP118 4.1 10.2 1.0 O B:HOH2064 4.1 11.2 1.0 O3A B:ATP500 4.2 6.7 1.0 ND2 B:ASN48 4.2 4.9 1.0 OD1 B:ASP118 4.3 10.0 1.0 O2A B:ATP500 4.3 10.3 1.0 CG2 B:THR21 4.4 7.3 1.0 O2G B:ATP500 4.4 9.5 1.0 CB B:LYS20 4.5 8.2 1.0 CE B:LYS20 4.6 9.7 1.0 O1B B:ATP500 4.6 17.9 1.0 CG B:ASP118 4.6 14.0 1.0 CB B:ASN48 4.6 10.0 1.0 PA B:ATP500 4.6 8.9 1.0 O B:ALA119 4.7 8.4 1.0 C B:LYS20 4.8 9.2 1.0 O1A B:ATP500 4.8 7.4 1.0 CG B:ASN48 4.9 14.9 1.0

Magnesium binding site 3 out of 4 in the Structure of the Bacterial Chromosome Segregation Protein Soj


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of the Bacterial Chromosome Segregation Protein Soj within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg501 b:11.8 occ:1.00 O C:HOH2025 2.1 10.8 1.0 OG1 C:THR21 2.1 10.9 1.0 O C:HOH2181 2.1 8.0 1.0 O3G C:ATP500 2.1 13.1 1.0 O C:HOH2062 2.1 10.1 1.0 O2B C:ATP500 2.4 11.9 1.0 PB C:ATP500 3.2 10.1 1.0 CB C:THR21 3.2 7.7 1.0 PG C:ATP500 3.3 10.6 1.0 O3B C:ATP500 3.4 8.2 1.0 O C:HOH2060 3.7 41.3 1.0 N C:THR21 3.8 6.6 1.0 O C:HOH2326 3.9 19.6 1.0 O1G C:ATP500 4.0 10.7 1.0 CA C:THR21 4.1 10.0 1.0 OD2 C:ASP118 4.1 11.9 1.0 O C:HOH2057 4.2 12.8 1.0 O3A C:ATP500 4.2 6.3 1.0 ND2 C:ASN48 4.2 9.1 1.0 OD1 C:ASP118 4.2 9.8 1.0 O2A C:ATP500 4.3 10.6 1.0 CG2 C:THR21 4.3 11.5 1.0 O2G C:ATP500 4.4 11.2 1.0 CB C:LYS20 4.5 9.3 1.0 CE C:LYS20 4.6 9.1 1.0 CG C:ASP118 4.6 15.4 1.0 CB C:ASN48 4.6 11.7 1.0 O1B C:ATP500 4.6 19.6 1.0 PA C:ATP500 4.6 9.6 1.0 O C:ALA119 4.7 11.0 1.0 O1A C:ATP500 4.8 10.0 1.0 C C:LYS20 4.8 10.2 1.0 CG C:ASN48 4.9 15.5 1.0

Magnesium binding site 4 out of 4 in the Structure of the Bacterial Chromosome Segregation Protein Soj


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of the Bacterial Chromosome Segregation Protein Soj within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg501 b:11.5 occ:1.00 O D:HOH2064 2.0 7.8 1.0 OG1 D:THR21 2.1 10.9 1.0 O D:HOH2028 2.1 11.7 1.0 O3G D:ATP500 2.1 12.8 1.0 O D:HOH2184 2.2 9.2 1.0 O2B D:ATP500 2.3 12.4 1.0 PB D:ATP500 3.2 10.2 1.0 CB D:THR21 3.2 11.3 1.0 PG D:ATP500 3.3 10.6 1.0 O3B D:ATP500 3.4 7.7 1.0 N D:THR21 3.8 10.2 1.0 O D:HOH2061 3.8 29.6 1.0 O D:HOH2063 4.0 25.8 1.0 O1G D:ATP500 4.0 11.8 1.0 CA D:THR21 4.0 10.4 1.0 OD2 D:ASP118 4.1 12.3 1.0 O D:HOH2185 4.1 14.7 1.0 O3A D:ATP500 4.2 7.0 1.0 ND2 D:ASN48 4.2 8.1 1.0 OD1 D:ASP118 4.3 12.7 1.0 O2A D:ATP500 4.3 11.2 1.0 CG2 D:THR21 4.3 10.1 1.0 O2G D:ATP500 4.4 11.1 1.0 CB D:LYS20 4.5 7.2 1.0 CB D:ASN48 4.5 12.4 1.0 O1B D:ATP500 4.6 17.7 1.0 CE D:LYS20 4.6 8.0 1.0 CG D:ASP118 4.6 14.6 1.0 PA D:ATP500 4.6 10.3 1.0 O1A D:ATP500 4.8 11.4 1.0 O D:ALA119 4.8 12.7 1.0 C D:LYS20 4.8 10.3 1.0 CG D:ASN48 4.9 15.7 1.0

T.A.Leonard, P.J.G.Butler, J.Lowe. Bacterial Chromosome Segregation: Structure and Dna Binding of the Soj Dimer--A Conserved Biological Switch Embo J. V. 24 270 2005.
ISSN: ISSN 0261-4189
PubMed: 15635448
DOI: 10.1038/SJ.EMBOJ.7600530