Sodium in PDB 4u3e: Anaerobic Ribonucleotide Reductase

All present enzymatic activity of Anaerobic Ribonucleotide Reductase:
1.17.4.2;

The structure of Anaerobic Ribonucleotide Reductase, PDB code: 4u3e was solved by M.A.Funk, C.L.Drennan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.38 / 1.64
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	78.313, 98.768, 86.556, 90.00, 111.72, 90.00
R / Rfree (%)	17.1 / 20

The structure of Anaerobic Ribonucleotide Reductase also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Sodium atom in the Anaerobic Ribonucleotide Reductase (pdb code 4u3e). 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 Anaerobic Ribonucleotide Reductase, PDB code: 4u3e:

Sodium binding site 1 out of 1 in the Anaerobic Ribonucleotide Reductase


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Anaerobic Ribonucleotide Reductase within 5.0Å range: probe atom residue distance (Å) B Occ A:Na704 b:31.9 occ:1.00 O A:ACT705 2.3 25.7 1.0 OD1 A:ASP115 2.3 20.5 1.0 O A:HOH1009 2.4 31.5 1.0 O7 A:CIT702 2.4 20.8 1.0 O2 A:CIT702 2.5 31.1 1.0 O6 A:CIT702 2.6 21.4 1.0 C6 A:CIT702 3.2 22.5 1.0 C3 A:CIT702 3.3 22.8 1.0 C A:ACT705 3.3 26.7 1.0 C1 A:CIT702 3.4 30.6 1.0 CG A:ASP115 3.5 20.1 1.0 OXT A:ACT705 3.6 29.6 1.0 O A:HOH1187 3.7 56.9 1.0 C2 A:CIT702 3.8 27.2 1.0 N A:ASP115 4.0 13.3 1.0 CB A:ASP115 4.1 17.5 1.0 O A:HOH1150 4.1 45.6 1.0 CA A:ASP115 4.3 14.6 1.0 O3 A:CIT702 4.3 18.8 1.0 O5 A:CIT702 4.4 22.1 1.0 OD2 A:ASP115 4.4 21.6 1.0 O1 A:CIT702 4.5 30.0 1.0 CE1 A:TYR124 4.5 16.0 1.0 O A:HOH1109 4.5 30.5 1.0 C4 A:CIT702 4.6 19.0 1.0 CH3 A:ACT705 4.7 23.8 1.0 CB A:HIS114 4.7 12.3 1.0 ND1 A:HIS114 4.9 16.3 1.0 C5 A:CIT702 4.9 19.6 1.0 C A:HIS114 5.0 14.4 1.0

Y.Wei, M.A.Funk, L.A.Rosado, J.Baek, C.L.Drennan, J.Stubbe. The Class III Ribonucleotide Reductase From Neisseria Bacilliformis Can Utilize Thioredoxin As A Reductant. Proc.Natl.Acad.Sci.Usa V. 111 E3756 2014.
ISSN: ESSN 1091-6490
PubMed: 25157154
DOI: 10.1073/PNAS.1414396111