Sodium in PDB 8pqm: The Dna-Binding Domain of L-Lactate Utilization Repressor (Lutr-Dbd) From Bacillus Subtilis

The structure of The Dna-Binding Domain of L-Lactate Utilization Repressor (Lutr-Dbd) From Bacillus Subtilis, PDB code: 8pqm was solved by M.Soltysova, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.38 / 1.46
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	28.31, 38.37, 66.71, 90, 90, 90
R / Rfree (%)	20.2 / 23.7

The binding sites of Sodium atom in the The Dna-Binding Domain of L-Lactate Utilization Repressor (Lutr-Dbd) From Bacillus Subtilis (pdb code 8pqm). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the The Dna-Binding Domain of L-Lactate Utilization Repressor (Lutr-Dbd) From Bacillus Subtilis, PDB code: 8pqm:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the The Dna-Binding Domain of L-Lactate Utilization Repressor (Lutr-Dbd) From Bacillus Subtilis


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The Dna-Binding Domain of L-Lactate Utilization Repressor (Lutr-Dbd) From Bacillus Subtilis within 5.0Å range: probe atom residue distance (Å) B Occ A:Na101 b:72.7 occ:1.00 O A:HOH243 1.9 45.4 0.5 O A:HOH243 2.0 32.3 0.2 O A:HOH243 2.1 23.8 0.2 O A:PHE44 3.8 29.7 1.0 OE1 A:GLU14 4.1 41.4 1.0 CB A:GLU14 4.2 29.5 1.0 CB A:PHE44 4.4 27.5 1.0 CG1 A:VAL46 4.5 25.6 1.0 CG2 A:VAL15 4.5 25.9 1.0 C A:PHE44 4.7 26.1 1.0 CD1 A:PHE44 4.7 35.0 1.0 C A:GLU14 4.8 25.5 1.0 N A:VAL15 4.8 24.8 1.0 O A:GLU14 4.8 25.0 1.0 CA A:PHE44 4.9 28.9 1.0 CG A:PHE44 4.9 28.3 1.0 CA A:VAL15 5.0 23.5 1.0

Sodium binding site 2 out of 2 in the The Dna-Binding Domain of L-Lactate Utilization Repressor (Lutr-Dbd) From Bacillus Subtilis


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of The Dna-Binding Domain of L-Lactate Utilization Repressor (Lutr-Dbd) From Bacillus Subtilis within 5.0Å range: probe atom residue distance (Å) B Occ A:Na102 b:53.4 occ:1.00 O A:HOH226 1.8 32.4 0.4 O A:HOH226 1.9 18.8 0.2 O A:HOH226 2.1 36.3 0.4 O A:HOH210 3.9 29.5 0.5 O A:HOH201 4.2 49.5 1.0 O A:HOH215 4.4 60.0 1.0 CG A:LYS10 4.5 22.5 0.5 NZ A:LYS10 4.5 30.6 0.5 CG A:LYS10 4.6 31.4 0.5 O A:THR8 4.6 64.8 1.0 C A:LYS9 4.8 27.3 1.0 N A:LYS10 4.9 26.0 1.0 C A:THR8 4.9 48.9 1.0

M.Soltysova, P.Rezacova. Structure of the Dna-Binding Domain of L-Lactate Transcriptional Repressor (Lutr-Dbd) From Bacillus Subtilis To Be Published.