Sodium in PDB 5dn5: Structure of A C-Terminally Truncated Glycoside Hydrolase Domain From Salmonella Typhimurium Flgj

The structure of Structure of A C-Terminally Truncated Glycoside Hydrolase Domain From Salmonella Typhimurium Flgj, PDB code: 5dn5 was solved by P.Zaloba, B.A.Bailey-Elkin, B.L.Mark, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.76 / 2.15
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	105.700, 61.120, 65.220, 90.00, 106.70, 90.00
R / Rfree (%)	17.5 / 25.2

The structure of Structure of A C-Terminally Truncated Glycoside Hydrolase Domain From Salmonella Typhimurium Flgj also contains other interesting chemical elements:

Iodine	(I)	10 atoms
Chlorine	(Cl)	2 atoms

The binding sites of Sodium atom in the Structure of A C-Terminally Truncated Glycoside Hydrolase Domain From Salmonella Typhimurium Flgj (pdb code 5dn5). 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 Structure of A C-Terminally Truncated Glycoside Hydrolase Domain From Salmonella Typhimurium Flgj, PDB code: 5dn5:

Sodium binding site 1 out of 1 in the Structure of A C-Terminally Truncated Glycoside Hydrolase Domain From Salmonella Typhimurium Flgj


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of A C-Terminally Truncated Glycoside Hydrolase Domain From Salmonella Typhimurium Flgj within 5.0Å range: probe atom residue distance (Å) B Occ A:Na403 b:33.3 occ:1.00 HA A:ALA251 2.6 33.4 1.0 OG1 A:THR254 2.7 35.9 1.0 HG1 A:THR254 2.7 43.0 1.0 HB A:THR254 3.0 45.2 1.0 HG3 A:GLN169 3.2 38.6 1.0 HG23 A:VAL250 3.3 26.4 1.0 HB3 A:SER170 3.3 32.7 1.0 CB A:THR254 3.3 37.7 1.0 O A:VAL250 3.4 29.4 1.0 HG21 A:THR254 3.4 55.1 1.0 HG2 A:GLN169 3.4 38.6 1.0 CA A:ALA251 3.5 27.8 1.0 HA A:SER170 3.6 33.4 1.0 HE21 A:GLN169 3.7 38.4 1.0 O A:HOH538 3.7 41.6 1.0 CG A:GLN169 3.8 32.1 1.0 C A:VAL250 3.8 31.1 1.0 CG2 A:THR254 3.9 45.9 1.0 N A:ALA251 3.9 27.4 1.0 CB A:SER170 4.0 27.2 1.0 HB2 A:SER170 4.0 32.7 1.0 HB2 A:ALA251 4.1 29.1 1.0 CG2 A:VAL250 4.2 22.0 1.0 O B:HOH564 4.2 30.9 1.0 CA A:SER170 4.2 27.8 1.0 H A:THR254 4.3 39.5 1.0 CB A:ALA251 4.3 24.2 1.0 HB A:VAL250 4.3 24.9 1.0 NE2 A:GLN169 4.4 32.0 1.0 HG21 A:VAL250 4.4 26.4 1.0 HG23 A:THR254 4.4 55.1 1.0 HB1 A:ALA251 4.5 29.1 1.0 H A:ALA251 4.5 32.9 1.0 C A:ALA251 4.5 39.2 1.0 O A:GLN169 4.5 31.6 1.0 O A:ALA251 4.5 35.4 1.0 HG22 A:THR254 4.6 55.1 1.0 CD A:GLN169 4.7 32.5 1.0 CB A:VAL250 4.7 20.7 1.0 CA A:THR254 4.7 39.4 1.0 N A:SER170 4.7 30.9 1.0 C A:GLN169 4.7 33.7 1.0 HB3 A:GLN169 4.8 39.6 1.0 HG22 A:VAL250 4.8 26.4 1.0 CB A:GLN169 4.9 33.0 1.0 N A:THR254 4.9 32.9 1.0 CA A:VAL250 4.9 27.9 1.0

P.Zaloba, B.A.Bailey-Elkin, M.Derksen, B.L.Mark. Structural and Biochemical Insights Into the Peptidoglycan Hydrolase Domain of Flgj From Salmonella Typhimurium. Plos One V. 11 49204 2016.
ISSN: ESSN 1932-6203
PubMed: 26871950
DOI: 10.1371/JOURNAL.PONE.0149204