Sodium in PDB 8tw1: Crystal Structure of LYS2972, A Phage Endolysin Targeting Streptococcus Thermophilus

The structure of Crystal Structure of LYS2972, A Phage Endolysin Targeting Streptococcus Thermophilus, PDB code: 8tw1 was solved by X.Zhu, S.Moineau, R.Shi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.50 / 1.27
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	83.18, 64.792, 55.426, 90, 122.68, 90
R / Rfree (%)	16.9 / 19.1

The binding sites of Sodium atom in the Crystal Structure of LYS2972, A Phage Endolysin Targeting Streptococcus Thermophilus (pdb code 8tw1). 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 LYS2972, A Phage Endolysin Targeting Streptococcus Thermophilus, PDB code: 8tw1:

Sodium binding site 1 out of 1 in the Crystal Structure of LYS2972, A Phage Endolysin Targeting Streptococcus Thermophilus


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 LYS2972, A Phage Endolysin Targeting Streptococcus Thermophilus within 5.0Å range: probe atom residue distance (Å) B Occ A:Na302 b:27.7 occ:1.00 O A:ILE217 2.2 31.1 1.0 O A:HOH550 2.4 48.7 1.0 OD1 A:ASP216 2.4 35.5 1.0 OD1 A:ASP219 2.5 26.3 1.0 O A:TRP209 2.5 23.3 1.0 OD1 A:ASN208 2.6 27.1 1.0 CG A:ASN208 3.3 24.6 1.0 N A:TRP209 3.3 20.1 1.0 C A:ILE217 3.4 34.2 1.0 C A:TRP209 3.5 24.8 1.0 CG A:ASP216 3.6 37.8 1.0 ND2 A:ASN208 3.6 26.7 1.0 CG A:ASP219 3.6 31.1 1.0 N A:ILE217 3.8 31.9 1.0 CA A:TRP209 3.8 20.6 1.0 C A:ASN208 4.0 20.5 1.0 OD2 A:ASP216 4.1 48.5 1.0 CB A:TRP209 4.1 22.6 1.0 N A:ASP219 4.2 29.7 1.0 CA A:ILE217 4.2 34.3 1.0 CA A:ASN208 4.3 20.0 1.0 O A:HOH410 4.3 35.8 1.0 OD2 A:ASP219 4.3 34.1 1.0 C A:PRO218 4.4 31.6 1.0 CB A:ASN208 4.4 20.2 1.0 N A:PRO218 4.4 31.6 1.0 CA A:PRO218 4.5 29.6 1.0 C A:ASP216 4.6 34.3 1.0 CA A:ASP216 4.6 33.0 1.0 CB A:ASP219 4.7 28.7 1.0 CA A:ASP219 4.7 29.8 1.0 CB A:ASP216 4.7 36.5 1.0 N A:VAL210 4.7 21.6 1.0 CG1 A:ILE217 4.8 33.5 1.0 O A:ASN208 4.8 20.7 1.0 O A:PRO218 4.9 35.1 1.0

F.Oechslin, X.Zhu, C.Morency, V.Somerville, R.Shi, S.Moineau. Fermentation Practices Select For Thermostable Endolysins in Phages. Mol.Biol.Evol. 2024.
ISSN: ESSN 1537-1719
PubMed: 38489607
DOI: 10.1093/MOLBEV/MSAE055