Sodium in PDB 5vyl: Crystal Structure of N-Terminal Half of Herpes Simplex Virus Type 1 UL37 Protein

The structure of Crystal Structure of N-Terminal Half of Herpes Simplex Virus Type 1 UL37 Protein, PDB code: 5vyl was solved by A.Koenigsberg, E.E.Heldwein, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	96.74 / 3.51
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	138.232, 138.232, 164.220, 90.00, 90.00, 120.00
R / Rfree (%)	24 / 28.2

The binding sites of Sodium atom in the Crystal Structure of N-Terminal Half of Herpes Simplex Virus Type 1 UL37 Protein (pdb code 5vyl). 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 Crystal Structure of N-Terminal Half of Herpes Simplex Virus Type 1 UL37 Protein, PDB code: 5vyl:

Sodium binding site 1 out of 1 in the Crystal Structure of N-Terminal Half of Herpes Simplex Virus Type 1 UL37 Protein


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of N-Terminal Half of Herpes Simplex Virus Type 1 UL37 Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Na601 b:86.3 occ:1.00 OD1 A:ASP561 2.6 0.5 1.0 O A:THR573 3.5 0.5 1.0 CG A:ASP561 3.8 0.9 1.0 CG2 A:THR574 4.1 0.7 1.0 NH1 A:ARG530 4.3 0.3 1.0 C A:THR573 4.4 0.8 1.0 CG2 A:ILE560 4.4 87.2 1.0 CD A:ARG530 4.4 0.0 1.0 CA A:ASP561 4.5 94.3 1.0 OD2 A:ASP561 4.6 0.8 1.0 N A:ASP561 4.6 0.2 1.0 CB A:PRO572 4.7 0.0 1.0 CB A:ASP561 4.7 0.2 1.0 N A:THR573 4.8 0.8 1.0 CZ A:ARG530 4.8 0.9 1.0 NE A:ARG530 4.9 0.1 1.0 C A:ILE560 4.9 98.8 1.0 CB A:ILE560 5.0 88.8 1.0

A.L.Koenigsberg, E.E.Heldwein. Crystal Structure of the N-Terminal Half of the Traffic Controller UL37 From Herpes Simplex Virus 1. J. Virol. V. 91 2017.
ISSN: ESSN 1098-5514
PubMed: 28768862
DOI: 10.1128/JVI.01244-17