Sodium in PDB 7ztb: Structure of the Salmonella Trna Pyrophosphokinase Caprel

The structure of Structure of the Salmonella Trna Pyrophosphokinase Caprel, PDB code: 7ztb was solved by A.Garcia-Pino, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	68.10 / 2.31
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	49.573, 136.196, 57.782, 90, 102.7, 90
R / Rfree (%)	21.2 / 26.5

The structure of Structure of the Salmonella Trna Pyrophosphokinase Caprel also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Sodium atom in the Structure of the Salmonella Trna Pyrophosphokinase Caprel (pdb code 7ztb). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Structure of the Salmonella Trna Pyrophosphokinase Caprel, PDB code: 7ztb:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Structure of the Salmonella Trna Pyrophosphokinase Caprel


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of the Salmonella Trna Pyrophosphokinase Caprel within 5.0Å range: probe atom residue distance (Å) B Occ A:Na402 b:71.1 occ:1.00 OE1 A:GLU317 3.4 77.9 1.0 O A:PRO312 3.9 55.2 1.0 CD A:GLU317 4.3 80.9 1.0 CD1 A:PHE313 4.3 59.0 1.0 OE2 A:GLU317 4.5 86.3 1.0 CE1 A:PHE313 4.5 60.3 1.0 CA A:PHE313 4.8 56.2 1.0 CG A:PHE313 4.9 57.3 1.0 CE A:LYS311 4.9 56.6 1.0 C A:PRO312 5.0 54.4 1.0

Sodium binding site 2 out of 2 in the Structure of the Salmonella Trna Pyrophosphokinase Caprel


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of the Salmonella Trna Pyrophosphokinase Caprel within 5.0Å range: probe atom residue distance (Å) B Occ B:Na401 b:64.2 occ:1.00 O B:HOH526 3.4 76.6 1.0 CD1 B:TYR155 4.2 63.3 1.0 CE1 B:TYR155 4.2 63.5 1.0 CG B:TYR155 4.3 63.3 1.0 CD2 B:TYR155 4.4 64.0 1.0 CZ B:TYR155 4.4 64.3 1.0 CE2 B:TYR155 4.5 64.2 1.0 NH2 B:ARG184 4.6 65.5 1.0 O B:HOH512 4.7 43.6 1.0 CB B:TYR155 4.9 63.5 1.0

T.Zhang, H.Tamman, K.Coppieters 't Wallant, T.Kurata, M.Leroux, S.Srikant, T.Brodiazhenko, A.Cepauskas, A.Talavera, C.Martens, G.C.Atkinson, V.Hauryliuk, A.Garcia-Pino, M.T.Laub. Direct Activation of A Bacterial Innate Immune System By A Viral Capsid Protein. Nature V. 612 132 2022.
ISSN: ESSN 1476-4687
PubMed: 36385533
DOI: 10.1038/S41586-022-05444-Z