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

Protein crystallography data

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

Other elements in 7um2:

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
Sodium (Na) 1 atom

Cadmium Binding Sites:

The binding sites of Cadmium 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 Cadmium atom.
In total only one binding site of Cadmium was determined in the Sars-Cov-2 Spike-Derived Peptide S417-425 K417T Mutant (Tiadynykl) Presented By Hla-A*02:01, PDB code: 7um2:

Cadmium binding site 1 out of 1 in 7um2

Go back to Cadmium Binding Sites List in 7um2
Cadmium 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 Cadmium with other atoms in the Cd 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:Cd402

b:23.7
occ:1.00
CD2 A:HIS151 2.3 26.4 1.0
OE2 A:GLU154 2.4 24.0 1.0
OE1 A:GLU154 2.4 20.6 1.0
CD A:GLU154 2.7 19.2 1.0
NE2 A:HIS151 3.1 26.9 1.0
CG A:HIS151 3.3 26.9 1.0
CB A:HIS151 4.0 23.4 1.0
O A:HOH687 4.1 37.1 1.0
CE1 A:HIS151 4.2 27.4 1.0
CG A:GLU154 4.2 18.9 1.0
ND1 A:HIS151 4.3 30.1 1.0
O A:HOH549 4.7 30.6 1.0
O A:HOH553 4.7 34.6 1.0
CA A:HIS151 4.9 22.8 1.0
CB A:GLU154 5.0 18.7 1.0

Reference:

C.Szeto, S.Gras. Sars-Cov-2 Spike-Derived Peptide S417-425 K417T Mutant (Tiadynykl) Presented By Hla-A*02:01 To Be Published.
Page generated: Fri Jul 19 20:13:29 2024

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