Zinc in PDB 7qif: Crystal Structure of Sars-Cov-2 NSP14 in Complex with 7MEGPPPG.

The structure of Crystal Structure of Sars-Cov-2 NSP14 in Complex with 7MEGPPPG., PDB code: 7qif was solved by J.A.Newman, N.Imprachim, Y.Yosaatmadja, O.Gileadi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	69.29 / 2.53
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	67.336, 67.314, 138.585, 90, 90, 90
R / Rfree (%)	20.7 / 24.7

The binding sites of Zinc atom in the Crystal Structure of Sars-Cov-2 NSP14 in Complex with 7MEGPPPG. (pdb code 7qif). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Crystal Structure of Sars-Cov-2 NSP14 in Complex with 7MEGPPPG., PDB code: 7qif:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Crystal Structure of Sars-Cov-2 NSP14 in Complex with 7MEGPPPG.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Sars-Cov-2 NSP14 in Complex with 7MEGPPPG. within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn602 b:10.9 occ:1.00 ND1 D:HIS264 2.1 6.5 1.0 NE2 D:HIS257 2.1 10.6 1.0 SG D:CYS261 2.2 19.4 1.0 SG D:CYS279 2.4 4.1 1.0 CE1 D:HIS257 2.9 11.9 1.0 CB D:CYS261 3.0 15.2 1.0 CG D:HIS264 3.0 8.9 1.0 CE1 D:HIS264 3.0 15.5 1.0 CD2 D:HIS257 3.2 14.4 1.0 CB D:HIS264 3.3 16.4 1.0 CB D:CYS279 3.3 8.4 1.0 N D:HIS264 4.0 21.1 1.0 CD2 D:HIS264 4.1 12.4 1.0 NE2 D:HIS264 4.1 15.9 1.0 ND1 D:HIS257 4.1 16.6 1.0 CG D:HIS257 4.2 18.8 1.0 CA D:HIS264 4.3 18.3 1.0 CA D:CYS261 4.4 17.0 1.0 N D:ASP415 4.5 19.3 1.0 CA D:CYS279 4.8 6.7 1.0 C D:CYS261 4.8 25.5 1.0 SG D:CYS414 4.9 18.0 0.7 O D:HIS264 4.9 28.1 1.0 CA D:CYS414 5.0 14.8 0.7 CA D:CYS414 5.0 15.0 0.3

Zinc binding site 2 out of 3 in the Crystal Structure of Sars-Cov-2 NSP14 in Complex with 7MEGPPPG.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Sars-Cov-2 NSP14 in Complex with 7MEGPPPG. within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn603 b:21.8 occ:1.00 SG D:CYS452 2.1 10.8 1.0 ND1 D:HIS487 2.2 12.8 1.0 SG D:CYS484 2.3 20.2 1.0 SG D:CYS477 2.4 17.0 1.0 CG D:HIS487 3.1 15.1 1.0 CB D:CYS477 3.1 17.7 1.0 CB D:CYS484 3.1 16.9 1.0 CB D:CYS452 3.2 25.2 1.0 CB D:HIS487 3.3 18.3 1.0 CE1 D:HIS487 3.3 22.0 1.0 N D:CYS484 3.6 13.1 1.0 CA D:CYS452 3.8 27.8 1.0 CA D:CYS484 3.9 14.8 1.0 N D:HIS487 4.2 19.3 1.0 CD2 D:HIS487 4.3 12.3 1.0 NE2 D:HIS487 4.3 17.2 1.0 N D:CYS477 4.3 20.9 1.0 CA D:CYS477 4.4 16.9 1.0 CA D:HIS487 4.4 18.1 1.0 OG1 D:THR475 4.6 13.1 1.0 C D:CYS484 4.6 22.9 1.0 CB D:THR475 4.6 14.3 1.0 O D:CYS484 4.7 30.9 1.0 C D:CYS452 4.8 29.4 1.0 C D:VAL483 4.8 15.5 1.0 N D:CYS452 4.9 32.9 1.0

Zinc binding site 3 out of 3 in the Crystal Structure of Sars-Cov-2 NSP14 in Complex with 7MEGPPPG.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Sars-Cov-2 NSP14 in Complex with 7MEGPPPG. within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn604 b:28.2 occ:1.00 ND1 D:HIS229 2.1 20.7 1.0 SG D:CYS207 2.3 28.4 1.0 SG D:CYS226 2.4 32.3 1.0 SG D:CYS210 2.4 29.7 1.0 CE1 D:HIS229 2.7 22.1 1.0 CB D:CYS207 3.0 20.9 1.0 CG D:HIS229 3.3 19.8 1.0 CB D:CYS210 3.6 27.4 1.0 CB D:CYS226 3.6 22.3 1.0 N D:CYS210 3.9 29.3 1.0 N D:CYS226 3.9 26.1 1.0 NE2 D:HIS229 3.9 14.6 1.0 CB D:HIS229 3.9 18.1 1.0 CD2 D:HIS229 4.3 16.6 1.0 CA D:CYS210 4.3 25.5 1.0 NH1 D:ARG212 4.3 31.0 1.0 CA D:CYS226 4.4 16.6 1.0 C D:LEU209 4.4 21.8 1.0 CA D:CYS207 4.5 30.6 1.0 N D:HIS229 4.5 19.8 1.0 CB D:LEU209 4.6 28.7 1.0 N D:LEU209 4.7 28.3 1.0 CB D:HIS228 4.8 20.1 1.0 CA D:LEU209 4.8 22.6 1.0 CB D:ARG212 4.8 26.3 1.0 C D:CYS210 4.9 26.4 1.0 CA D:HIS229 4.9 19.8 1.0 CD D:ARG212 5.0 30.9 1.0 C D:CYS226 5.0 21.4 1.0

J.A.Newman, N.Imprachim, Y.Yosaatmadja, O.Gileadi. Crystal Structure of Sars-Cov-2 NSP14 in Complex with 7MEGPPPG. To Be Published.