Sodium in PDB 5lhf: Phosphoribosyl Anthranilate Isomerase From Thermococcus Kodakaraensis

All present enzymatic activity of Phosphoribosyl Anthranilate Isomerase From Thermococcus Kodakaraensis:
5.3.1.24;

The structure of Phosphoribosyl Anthranilate Isomerase From Thermococcus Kodakaraensis, PDB code: 5lhf 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)	43.29 / 1.75
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	29.678, 47.144, 88.518, 102.61, 93.88, 108.34
R / Rfree (%)	17.3 / 21.4

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

Chlorine

(Cl)

2 atoms

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

Sodium binding site 1 out of 2 in the Phosphoribosyl Anthranilate Isomerase 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 Phosphoribosyl Anthranilate Isomerase From Thermococcus Kodakaraensis within 5.0Å range: probe atom residue distance (Å) B Occ A:Na302 b:23.1 occ:0.46 O A:HOH557 2.4 34.7 1.0 OG1 A:THR42 2.6 25.0 1.0 N A:THR42 3.5 16.0 1.0 CA A:THR42 3.7 20.7 1.0 CB A:THR42 3.7 21.6 1.0 CD A:LYS41 3.7 47.5 1.0 CG A:LYS41 4.0 30.6 1.0 CB A:LYS41 4.0 16.5 1.0 C A:LYS41 4.0 12.2 1.0 O A:LYS41 4.5 17.5 1.0 CG2 A:THR42 4.5 19.7 1.0 CA A:LYS41 4.6 10.4 1.0 CE A:LYS41 5.0 55.5 1.0

Sodium binding site 2 out of 2 in the Phosphoribosyl Anthranilate Isomerase 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 Phosphoribosyl Anthranilate Isomerase From Thermococcus Kodakaraensis within 5.0Å range: probe atom residue distance (Å) B Occ B:Na302 b:23.8 occ:0.67 OH B:TYR96 2.5 22.7 1.0 O B:HOH468 3.0 31.0 1.0 CZ B:TYR96 3.6 24.5 1.0 CE1 B:TYR96 3.8 22.6 1.0 OE1 B:GLU71 4.0 21.8 1.0 CB B:ALA67 4.0 13.2 1.0 CE1 B:PHE63 4.0 15.1 1.0 CZ B:PHE63 4.4 19.2 1.0 OE2 B:GLU95 4.4 38.2 1.0 CE2 B:TYR96 4.8 28.1 1.0

S.Perveen, N.Rashid, A.C.Papageorgiou. Crystal Structure of A Phosphoribosyl Anthranilate Isomerase From the Hyperthermophilic Archaeon Thermococcus Kodakaraensis. Acta Crystallogr F Struct V. 72 804 2016BIOL Commun.
ISSN: ESSN 2053-230X
PubMed: 27827353
DOI: 10.1107/S2053230X16015223