Sodium in PDB 5ydd: Crystal Structure of C-Terminal Domain of RV1828 From Mycobacterium Tuberculosis

The structure of Crystal Structure of C-Terminal Domain of RV1828 From Mycobacterium Tuberculosis, PDB code: 5ydd was solved by S.Singh, S.Karthiekeyan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	27.24 / 1.50
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	45.035, 31.452, 76.998, 90.00, 97.76, 90.00
R / Rfree (%)	15.4 / 20.9

The binding sites of Sodium atom in the Crystal Structure of C-Terminal Domain of RV1828 From Mycobacterium Tuberculosis (pdb code 5ydd). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of C-Terminal Domain of RV1828 From Mycobacterium Tuberculosis, PDB code: 5ydd:

Sodium binding site 1 out of 1 in the Crystal Structure of C-Terminal Domain of RV1828 From Mycobacterium Tuberculosis


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of C-Terminal Domain of RV1828 From Mycobacterium Tuberculosis within 5.0Å range: probe atom residue distance (Å) B Occ B:Na304 b:25.1 occ:1.00 N B:GLY158 3.1 23.3 1.0 N B:PHE160 3.3 18.2 1.0 C B:GLY156 3.5 19.1 1.0 CA B:GLY158 3.5 20.7 1.0 O B:HOH461 3.6 50.3 1.0 N B:GLY159 3.6 18.8 1.0 CA B:GLY156 3.7 16.9 1.0 N B:PRO157 3.7 22.7 1.0 C B:GLY158 3.7 20.5 1.0 CB B:PHE160 3.7 18.3 1.0 O B:PHE160 3.7 20.6 1.0 O B:GLY156 3.8 20.9 1.0 CA B:PHE160 3.9 17.4 1.0 CD2 B:PHE160 4.0 23.9 1.0 CD B:PRO157 4.0 25.5 1.0 N B:GLY156 4.1 17.8 1.0 C B:PHE160 4.1 15.6 1.0 C B:PRO157 4.2 25.4 1.0 CG B:PHE160 4.3 20.5 1.0 C B:GLY159 4.4 15.6 1.0 CA B:PRO157 4.5 24.1 1.0 O B:GLY158 4.5 24.3 1.0 CA B:GLY159 4.6 17.3 1.0 CG B:PRO157 4.6 27.6 1.0

S.Singh, R.R.Sevalkar, D.Sarkar, S.Karthikeyan. Characteristics of the Essential Pathogenicity Factor RV1828, A Merr Family Transcription Regulator From Mycobacterium Tuberculosis. Febs J. V. 285 4424 2018.
ISSN: ISSN 1742-4658
PubMed: 30306715
DOI: 10.1111/FEBS.14676