Zinc in PDB 7jyy: Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA)Pupupapapa (Cap-0) and S-Adenosylmethionine (Sam).

The structure of Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA)Pupupapapa (Cap-0) and S-Adenosylmethionine (Sam)., PDB code: 7jyy was solved by G.Minasov, L.Shuvalova, M.Rosas-Lemus, O.Kiryukhina, J.S.Brunzelle, K.J.F.Satchell, Center For Structural Genomics Of Infectious Diseases(Csgid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.97 / 2.05
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	166.948, 166.948, 98.810, 90.00, 90.00, 120.00
R / Rfree (%)	16.6 / 18.5

The structure of Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA)Pupupapapa (Cap-0) and S-Adenosylmethionine (Sam). also contains other interesting chemical elements:

Magnesium	(Mg)	2 atoms
Chlorine	(Cl)	1 atom
Sodium	(Na)	3 atoms

The binding sites of Zinc atom in the Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA)Pupupapapa (Cap-0) and S-Adenosylmethionine (Sam). (pdb code 7jyy). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA)Pupupapapa (Cap-0) and S-Adenosylmethionine (Sam)., PDB code: 7jyy:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA)Pupupapapa (Cap-0) and S-Adenosylmethionine (Sam).


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 NSP16/10 Heterodimer in Complex with (M7GPPPA)Pupupapapa (Cap-0) and S-Adenosylmethionine (Sam). within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn4401 b:56.0 occ:1.00 NE2 B:HIS4336 2.1 75.9 1.0 SG B:CYS4327 2.3 58.3 1.0 SG B:CYS4343 2.3 61.9 1.0 SG B:CYS4330 2.3 60.7 1.0 CD2 B:HIS4336 3.0 74.6 1.0 CE1 B:HIS4336 3.1 73.9 1.0 CB B:CYS4327 3.2 59.0 1.0 CB B:CYS4343 3.3 68.7 1.0 CB B:CYS4330 3.4 61.0 1.0 N B:CYS4330 3.6 62.1 1.0 CA B:CYS4330 3.9 60.2 1.0 ND1 B:HIS4336 4.2 76.0 1.0 CG B:HIS4336 4.2 77.4 1.0 CA B:CYS4343 4.4 71.1 1.0 C B:TYR4329 4.5 64.0 1.0 CB B:TYR4329 4.6 67.0 1.0 CA B:CYS4327 4.6 57.0 1.0 CB B:LYS4346 4.8 56.8 1.0 CA B:TYR4329 4.9 64.2 1.0 O B:CYS4327 5.0 56.8 1.0

Zinc binding site 2 out of 4 in the Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA)Pupupapapa (Cap-0) and S-Adenosylmethionine (Sam).


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 NSP16/10 Heterodimer in Complex with (M7GPPPA)Pupupapapa (Cap-0) and S-Adenosylmethionine (Sam). within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn4402 b:61.7 occ:0.75 SG B:CYS4381 2.3 77.4 1.0 SG B:CYS4370 2.3 89.4 1.0 SG B:CYS4373 2.3 92.7 1.0 SG B:CYS4383 2.3 98.3 1.0 CB B:CYS4370 3.3 86.4 1.0 CB B:CYS4383 3.4 97.0 1.0 CB B:CYS4373 3.4 91.9 1.0 CB B:CYS4381 3.4 79.8 1.0 N B:CYS4373 3.8 93.0 1.0 CA B:CYS4381 4.0 77.2 1.0 N B:CYS4383 4.1 86.7 1.0 CA B:CYS4373 4.2 89.2 1.0 CA B:CYS4383 4.3 93.7 1.0 N B:SER4382 4.5 77.6 1.0 CB B:VAL4372 4.5 98.7 1.0 C B:CYS4381 4.5 76.1 1.0 CA B:CYS4370 4.7 84.5 1.0 CG1 B:VAL4372 4.9 99.4 1.0 C B:VAL4372 4.9 94.3 1.0

Zinc binding site 3 out of 4 in the Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA)Pupupapapa (Cap-0) and S-Adenosylmethionine (Sam).


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 NSP16/10 Heterodimer in Complex with (M7GPPPA)Pupupapapa (Cap-0) and S-Adenosylmethionine (Sam). within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn4401 b:49.7 occ:1.00 NE2 D:HIS4336 2.1 66.5 1.0 SG D:CYS4327 2.3 55.9 1.0 SG D:CYS4343 2.3 67.9 1.0 SG D:CYS4330 2.3 54.4 1.0 CD2 D:HIS4336 3.1 64.7 1.0 CE1 D:HIS4336 3.1 64.9 1.0 CB D:CYS4327 3.2 54.0 1.0 CB D:CYS4343 3.2 74.3 1.0 CB D:CYS4330 3.4 53.7 1.0 N D:CYS4330 3.5 56.0 1.0 CA D:CYS4330 3.9 53.3 1.0 ND1 D:HIS4336 4.2 66.3 1.0 CG D:HIS4336 4.2 67.4 1.0 CA D:CYS4343 4.3 75.4 1.0 CB D:TYR4329 4.5 63.1 1.0 C D:TYR4329 4.5 58.6 1.0 CA D:CYS4327 4.6 52.2 1.0 CB D:LYS4346 4.8 54.0 1.0 O D:CYS4327 4.9 48.5 1.0 CA D:TYR4329 4.9 60.8 1.0 C D:CYS4327 5.0 51.8 1.0

Zinc binding site 4 out of 4 in the Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA)Pupupapapa (Cap-0) and S-Adenosylmethionine (Sam).


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA)Pupupapapa (Cap-0) and S-Adenosylmethionine (Sam). within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn4402 b:66.1 occ:0.75 SG D:CYS4370 2.3 90.6 1.0 SG D:CYS4381 2.3 95.7 1.0 SG D:CYS4373 2.3 92.5 1.0 SG D:CYS4383 2.3 0.4 1.0 CB D:CYS4370 3.2 87.8 1.0 CB D:CYS4373 3.4 88.6 1.0 CB D:CYS4383 3.4 0.7 1.0 CB D:CYS4381 3.4 97.2 1.0 N D:CYS4373 3.7 86.6 1.0 CA D:CYS4381 3.9 94.9 1.0 CA D:CYS4373 4.1 85.0 1.0 N D:CYS4383 4.2 0.2 1.0 CA D:CYS4383 4.4 0.7 1.0 C D:CYS4381 4.5 98.1 1.0 CB D:VAL4372 4.5 91.1 1.0 N D:SER4382 4.6 0.2 1.0 CA D:CYS4370 4.7 83.4 1.0 C D:VAL4372 4.8 87.2 1.0 C D:CYS4373 5.0 79.6 1.0

G.Minasov, L.Shuvalova, M.Rosas-Lemus, O.Kiryukhina, J.S.Brunzelle, K.J.F.Satchell, Center For Structural Genomics Of Infectious Diseases(Csgid). Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA)Pupupapapa (Cap-0) and S-Adenosylmethionine (Sam). To Be Published.