Sodium in PDB 5e1i: Crystal Structure of Mycobacterium Tuberculosis L,D-Transpeptidase 2 with Carbapenem Drug T210

The structure of Crystal Structure of Mycobacterium Tuberculosis L,D-Transpeptidase 2 with Carbapenem Drug T210, PDB code: 5e1i was solved by P.Kumar, S.L.Ginell, G.Lamichhane, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.24 / 2.00
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	61.183, 93.957, 75.391, 90.00, 93.04, 90.00
R / Rfree (%)	19.1 / 22.5

The binding sites of Sodium atom in the Crystal Structure of Mycobacterium Tuberculosis L,D-Transpeptidase 2 with Carbapenem Drug T210 (pdb code 5e1i). 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 Mycobacterium Tuberculosis L,D-Transpeptidase 2 with Carbapenem Drug T210, PDB code: 5e1i:

Sodium binding site 1 out of 1 in the Crystal Structure of Mycobacterium Tuberculosis L,D-Transpeptidase 2 with Carbapenem Drug T210


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 Mycobacterium Tuberculosis L,D-Transpeptidase 2 with Carbapenem Drug T210 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na501 b:20.2 occ:1.00 OD1 A:ASP373 2.6 15.5 1.0 O A:ASP251 2.7 17.2 1.0 N A:VAL253 2.9 17.0 1.0 N A:VAL166 3.0 11.8 1.0 CA A:GLY165 3.2 11.8 1.0 C A:GLY165 3.6 12.7 1.0 CG A:ASP373 3.6 16.2 1.0 CA A:GLU252 3.6 17.1 1.0 O A:VAL253 3.7 16.0 1.0 CG2 A:VAL166 3.7 11.0 1.0 C A:GLU252 3.7 18.1 1.0 NZ A:LYS370 3.7 18.8 1.0 C A:ASP251 3.8 17.0 1.0 CA A:VAL253 3.8 15.6 1.0 CA A:ASP373 3.8 13.4 1.0 CG1 A:VAL166 3.8 12.8 1.0 CB A:VAL253 3.9 17.1 1.0 CB A:VAL166 4.0 13.2 1.0 CA A:VAL166 4.1 10.8 1.0 CB A:ASP373 4.1 12.2 1.0 C A:VAL253 4.1 17.9 1.0 N A:GLU252 4.1 16.3 1.0 CG2 A:VAL253 4.2 17.6 1.0 N A:ASP373 4.5 12.8 1.0 O A:GLY372 4.5 11.6 1.0 N A:GLY165 4.5 11.7 1.0 OD2 A:ASP373 4.5 17.4 1.0 C A:GLY372 4.8 13.3 1.0 O A:GLY165 4.8 11.6 1.0 C A:ASP373 4.9 12.7 1.0 O A:GLU252 4.9 20.1 1.0 CB A:GLU252 4.9 18.4 1.0 N A:ILE374 4.9 11.6 1.0 N A:GLY167 5.0 11.8 1.0

P.Kumar, A.Kaushik, E.P.Lloyd, S.G.Li, R.Mattoo, N.C.Ammerman, D.T.Bell, A.L.Perryman, T.A.Zandi, S.Ekins, S.L.Ginell, C.A.Townsend, J.S.Freundlich, G.Lamichhane. Non-Classical Transpeptidases Yield Insight Into New Antibacterials. Nat. Chem. Biol. V. 13 54 2017.
ISSN: ESSN 1552-4469
PubMed: 27820797
DOI: 10.1038/NCHEMBIO.2237