Zinc in PDB 6w75: 1.95 Angstrom Resolution Crystal Structure of NSP10 - NSP16 Complex From Sars-Cov-2

The structure of 1.95 Angstrom Resolution Crystal Structure of NSP10 - NSP16 Complex From Sars-Cov-2, PDB code: 6w75 was solved by G.Minasov, L.Shuvalova, M.Rosas-Lemus, O.Kiryukhina, G.Wiersum, A.Godzik, L.Jaroszewski, P.J.Stogios, T.Skarina, K.J.F.Satchell, Center Forstructural Genomics Of Infectious Diseases (Csgid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.93 / 1.95
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	166.245, 166.245, 98.279, 90.00, 90.00, 120.00
R / Rfree (%)	15.7 / 17.5

The structure of 1.95 Angstrom Resolution Crystal Structure of NSP10 - NSP16 Complex From Sars-Cov-2 also contains other interesting chemical elements:

Sodium

(Na)

7 atoms

The binding sites of Zinc atom in the 1.95 Angstrom Resolution Crystal Structure of NSP10 - NSP16 Complex From Sars-Cov-2 (pdb code 6w75). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the 1.95 Angstrom Resolution Crystal Structure of NSP10 - NSP16 Complex From Sars-Cov-2, PDB code: 6w75:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the 1.95 Angstrom Resolution Crystal Structure of NSP10 - NSP16 Complex From Sars-Cov-2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of 1.95 Angstrom Resolution Crystal Structure of NSP10 - NSP16 Complex From Sars-Cov-2 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn4401 b:34.1 occ:1.00 NE2 B:HIS4336 2.1 43.8 1.0 SG B:CYS4327 2.3 37.0 1.0 SG B:CYS4343 2.3 37.5 1.0 SG B:CYS4330 2.3 36.6 1.0 CD2 B:HIS4336 3.0 45.2 1.0 CE1 B:HIS4336 3.1 45.3 1.0 CB B:CYS4327 3.2 34.9 1.0 CB B:CYS4343 3.3 42.9 1.0 CB B:CYS4330 3.4 35.2 1.0 N B:CYS4330 3.5 36.2 1.0 CA B:CYS4330 3.9 35.5 1.0 ND1 B:HIS4336 4.2 46.3 1.0 CG B:HIS4336 4.2 47.2 1.0 O B:HOH4576 4.3 57.5 1.0 CA B:CYS4343 4.5 45.3 1.0 CB B:TYR4329 4.5 40.4 1.0 C B:TYR4329 4.5 38.1 1.0 O B:HOH4597 4.6 36.9 0.5 CA B:CYS4327 4.6 33.5 1.0 CB B:LYS4346 4.8 35.9 1.0 CA B:TYR4329 4.9 39.2 1.0 C B:CYS4327 5.0 34.2 1.0 N B:LYS4346 5.0 32.4 1.0 O B:CYS4327 5.0 33.0 1.0

Zinc binding site 2 out of 4 in the 1.95 Angstrom Resolution Crystal Structure of NSP10 - NSP16 Complex From Sars-Cov-2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of 1.95 Angstrom Resolution Crystal Structure of NSP10 - NSP16 Complex From Sars-Cov-2 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn4402 b:44.3 occ:1.00 SG B:CYS4381 2.3 42.8 1.0 SG B:CYS4370 2.3 47.7 1.0 SG B:CYS4373 2.3 43.7 1.0 SG B:CYS4383 2.3 53.8 1.0 CB B:CYS4370 3.1 46.3 1.0 CB B:CYS4373 3.3 46.7 1.0 CB B:CYS4383 3.4 59.8 1.0 CB B:CYS4381 3.5 45.4 1.0 N B:CYS4373 3.6 47.2 1.0 CA B:CYS4373 4.0 46.6 1.0 O B:HOH4539 4.0 45.0 1.0 CA B:CYS4381 4.1 45.3 1.0 N B:CYS4383 4.2 57.5 1.0 CA B:CYS4383 4.4 60.6 1.0 CB B:VAL4372 4.4 54.6 1.0 N B:SER4382 4.5 51.0 1.0 CA B:CYS4370 4.6 44.4 1.0 C B:CYS4381 4.6 47.9 1.0 C B:VAL4372 4.6 50.4 1.0 C B:CYS4373 4.8 44.4 1.0 CA B:VAL4372 4.9 52.9 1.0 N B:VAL4372 4.9 51.3 1.0 N B:GLY4374 5.0 43.0 1.0 CG1 B:VAL4372 5.0 56.3 1.0

Zinc binding site 3 out of 4 in the 1.95 Angstrom Resolution Crystal Structure of NSP10 - NSP16 Complex From Sars-Cov-2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of 1.95 Angstrom Resolution Crystal Structure of NSP10 - NSP16 Complex From Sars-Cov-2 within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn4401 b:31.1 occ:1.00 NE2 D:HIS4336 2.1 37.2 1.0 SG D:CYS4327 2.3 33.3 1.0 SG D:CYS4343 2.3 34.2 1.0 SG D:CYS4330 2.3 33.0 1.0 CD2 D:HIS4336 3.1 39.0 1.0 CE1 D:HIS4336 3.1 39.1 1.0 CB D:CYS4327 3.2 31.9 1.0 CB D:CYS4343 3.3 38.2 1.0 CB D:CYS4330 3.4 31.2 1.0 N D:CYS4330 3.6 32.1 1.0 CA D:CYS4330 3.9 30.9 1.0 ND1 D:HIS4336 4.2 40.5 1.0 CG D:HIS4336 4.2 42.0 1.0 O D:HOH4549 4.3 45.7 1.0 CA D:CYS4343 4.4 39.9 1.0 CB D:TYR4329 4.5 36.2 1.0 C D:TYR4329 4.5 33.1 1.0 CA D:CYS4327 4.6 31.1 1.0 CB D:LYS4346 4.8 34.8 1.0 CA D:TYR4329 4.9 34.5 1.0 N D:LYS4346 5.0 30.5 1.0

Zinc binding site 4 out of 4 in the 1.95 Angstrom Resolution Crystal Structure of NSP10 - NSP16 Complex From Sars-Cov-2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of 1.95 Angstrom Resolution Crystal Structure of NSP10 - NSP16 Complex From Sars-Cov-2 within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn4402 b:46.8 occ:1.00 SG D:CYS4381 2.3 48.5 1.0 SG D:CYS4370 2.3 52.5 1.0 SG D:CYS4373 2.3 49.3 1.0 SG D:CYS4383 2.4 60.4 1.0 CB D:CYS4370 3.2 50.5 1.0 CB D:CYS4373 3.3 50.4 1.0 CB D:CYS4383 3.4 68.3 1.0 CB D:CYS4381 3.5 51.4 1.0 N D:CYS4373 3.6 51.8 1.0 CA D:CYS4381 4.0 50.1 1.0 CA D:CYS4373 4.1 49.2 1.0 O D:HOH4543 4.1 38.9 0.5 N D:CYS4383 4.2 67.8 1.0 CA D:CYS4383 4.4 71.0 1.0 N D:SER4382 4.5 57.1 1.0 CB D:VAL4372 4.5 59.0 1.0 C D:CYS4381 4.5 53.3 1.0 CA D:CYS4370 4.6 49.2 1.0 C D:VAL4372 4.7 54.2 1.0 C D:CYS4373 4.9 45.0 1.0 N D:GLY4374 4.9 43.7 1.0 CA D:VAL4372 5.0 56.9 1.0 N D:VAL4372 5.0 56.6 1.0

G.Minasov, L.Shuvalova, M.Rosas-Lemus, O.Kiryukhina, G.Wiersum, A.Godzik, L.Jaroszewski, P.J.Stogios, T.Skarina, K.J.F.Satchell. 1.95 Angstrom Resolution Crystal Structure of NSP10 - NSP16 Complex From Sars-Cov-2 To Be Published.