Sodium in PDB 8amv: Repb PMV158 Hexamer

The structure of Repb PMV158 Hexamer, PDB code: 8amv was solved by C.Machon, J.Amodio, R.D.Boer, J.A.Ruiz-Maso, G.Del Solar, M.Coll, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.48 / 2.77
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	90.91, 79.33, 114.9, 90, 104.92, 90
R / Rfree (%)	21.8 / 26.7

The binding sites of Sodium atom in the Repb PMV158 Hexamer (pdb code 8amv). 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 Repb PMV158 Hexamer, PDB code: 8amv:

Sodium binding site 1 out of 1 in the Repb PMV158 Hexamer


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Repb PMV158 Hexamer within 5.0Å range: probe atom residue distance (Å) B Occ B:Na301 b:148.2 occ:1.00 O B:LEU79 3.1 92.9 1.0 CG B:PRO19 3.3 93.0 1.0 CB B:PRO19 3.7 92.8 1.0 CD B:PRO19 3.8 92.8 1.0 C B:LEU79 4.0 100.2 1.0 CA B:GLY80 4.5 117.2 1.0 N B:GLY80 4.6 108.5 1.0 CE B:LYS25 4.6 87.9 1.0 N B:PRO19 4.8 94.5 1.0 CA B:LEU79 4.9 110.6 1.0 CA B:PRO19 4.9 93.4 1.0

C.Machon, J.A.Ruiz-Maso, J.Amodio, D.R.Boer, L.Bordanaba-Ruiseco, K.Bury, I.Konieczny, G.Del Solar, M.Coll. Structures of PMV158 Replication Initiator Repb with and Without Dna Reveal A Flexible Dual-Function Protein. Nucleic Acids Res. 2023.
ISSN: ESSN 1362-4962
PubMed: 36688326
DOI: 10.1093/NAR/GKAC1271