Sodium in PDB 5nof: Anthranilate Phosphoribosyltransferase From Thermococcus Kodakaraensis

All present enzymatic activity of Anthranilate Phosphoribosyltransferase From Thermococcus Kodakaraensis:
2.4.2.18;

The structure of Anthranilate Phosphoribosyltransferase From Thermococcus Kodakaraensis, PDB code: 5nof was solved by S.Perveen, N.Rashid, A.C.Papageorgiou, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.19 / 2.42
Space group	P 2 21 21
Cell size a, b, c (Å), α, β, γ (°)	42.605, 81.389, 179.392, 90.00, 90.00, 90.00
R / Rfree (%)	19.5 / 25.5

The structure of Anthranilate Phosphoribosyltransferase From Thermococcus Kodakaraensis also contains other interesting chemical elements:

Chlorine	(Cl)	1 atom
Zinc	(Zn)	6 atoms

The binding sites of Sodium atom in the Anthranilate Phosphoribosyltransferase From Thermococcus Kodakaraensis (pdb code 5nof). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Anthranilate Phosphoribosyltransferase From Thermococcus Kodakaraensis, PDB code: 5nof:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Anthranilate Phosphoribosyltransferase From Thermococcus Kodakaraensis


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Anthranilate Phosphoribosyltransferase From Thermococcus Kodakaraensis within 5.0Å range: probe atom residue distance (Å) B Occ A:Na505 b:56.4 occ:1.00 OD1 A:ASP278 2.5 74.3 1.0 NH2 A:ARG274 3.0 85.2 1.0 CG A:ASP278 3.5 71.8 1.0 CZ A:ARG274 3.7 0.5 1.0 CG2 A:ILE246 3.8 60.3 1.0 OD2 A:ASP278 4.0 74.5 1.0 NH1 A:ARG274 4.1 0.5 1.0 CD1 A:LEU281 4.3 43.3 1.0 NE A:ARG274 4.4 0.4 1.0 CD A:ARG305 4.7 75.0 1.0 CB A:ASP278 4.7 58.5 1.0 CB A:ILE246 4.8 50.5 1.0 CD2 A:LEU301 4.8 52.5 1.0

Sodium binding site 2 out of 2 in the Anthranilate Phosphoribosyltransferase From Thermococcus Kodakaraensis


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Anthranilate Phosphoribosyltransferase From Thermococcus Kodakaraensis within 5.0Å range: probe atom residue distance (Å) B Occ B:Na404 b:77.0 occ:1.00 CD B:PRO128 4.1 53.3 1.0 CG B:PRO128 4.2 55.2 1.0 CL B:CL403 4.8 51.4 0.7

S.Perveen, N.Rashid, X.F.Tang, T.Imanaka, A.C.Papageorgiou. Anthranilate Phosphoribosyltransferase From the Hyperthermophilic Archaeon Thermococcus Kodakarensis Shows Maximum Activity with Zinc and Forms A Unique Dimeric Structure. Febs Open Bio V. 7 1217 2017.
ISSN: ESSN 2211-5463
PubMed: 28781961
DOI: 10.1002/2211-5463.12264