Sodium in PDB 7um2: Sars-Cov-2 Spike-Derived Peptide S417-425 K417T Mutant (Tiadynykl) Presented By Hla-A*02:01

The structure of Sars-Cov-2 Spike-Derived Peptide S417-425 K417T Mutant (Tiadynykl) Presented By Hla-A*02:01, PDB code: 7um2 was solved by C.Szeto, S.Gras, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	23.81 / 1.63
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	60.171, 79.105, 110.86, 90, 90, 90
R / Rfree (%)	17.9 / 19.5

The structure of Sars-Cov-2 Spike-Derived Peptide S417-425 K417T Mutant (Tiadynykl) Presented By Hla-A*02:01 also contains other interesting chemical elements:

Zinc	(Zn)	1 atom
Cadmium	(Cd)	1 atom

The binding sites of Sodium atom in the Sars-Cov-2 Spike-Derived Peptide S417-425 K417T Mutant (Tiadynykl) Presented By Hla-A*02:01 (pdb code 7um2). 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 Sars-Cov-2 Spike-Derived Peptide S417-425 K417T Mutant (Tiadynykl) Presented By Hla-A*02:01, PDB code: 7um2:

Sodium binding site 1 out of 1 in the Sars-Cov-2 Spike-Derived Peptide S417-425 K417T Mutant (Tiadynykl) Presented By Hla-A*02:01


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Sars-Cov-2 Spike-Derived Peptide S417-425 K417T Mutant (Tiadynykl) Presented By Hla-A*02:01 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na403 b:68.8 occ:1.00 NE1 A:TRP167 3.6 28.7 1.0 CE2 A:TRP167 3.8 30.8 1.0 CD1 A:TRP167 3.9 29.8 1.0 CB A:GLU166 4.1 28.8 1.0 CD2 A:TRP167 4.2 27.3 1.0 CZ2 A:TRP167 4.2 31.2 1.0 CG A:TRP167 4.3 26.8 1.0 C A:GLU166 4.4 29.3 1.0 O A:GLU166 4.4 27.6 1.0 O A:HOH519 4.4 36.2 1.0 N A:TRP167 4.6 23.8 1.0 CD A:ARG170 4.7 36.5 1.0 OE1 A:GLU166 4.8 62.8 1.0 CA A:TRP167 4.8 24.6 1.0 CA A:GLU166 4.9 26.8 1.0 CH2 A:TRP167 5.0 31.5 1.0 CE3 A:TRP167 5.0 29.1 1.0

C.Szeto, S.Gras. Sars-Cov-2 Spike-Derived Peptide S417-425 K417T Mutant (Tiadynykl) Presented By Hla-A*02:01 To Be Published.