Zinc in PDB 7n0c: Cryo-Em Structure of the Monomeric Form of Sars-Cov-2 NSP10-NSP14 (E191A)-Rna Complex

The structure of Cryo-Em Structure of the Monomeric Form of Sars-Cov-2 NSP10-NSP14 (E191A)-Rna Complex also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

The binding sites of Zinc atom in the Cryo-Em Structure of the Monomeric Form of Sars-Cov-2 NSP10-NSP14 (E191A)-Rna Complex (pdb code 7n0c). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the Cryo-Em Structure of the Monomeric Form of Sars-Cov-2 NSP10-NSP14 (E191A)-Rna Complex, PDB code: 7n0c:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in the Cryo-Em Structure of the Monomeric Form of Sars-Cov-2 NSP10-NSP14 (E191A)-Rna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of the Monomeric Form of Sars-Cov-2 NSP10-NSP14 (E191A)-Rna Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn201 b:129.8 occ:1.00 NE2 A:HIS83 1.8 53.0 1.0 SG A:CYS77 2.0 51.7 1.0 SG A:CYS90 2.1 57.2 1.0 SG A:CYS74 2.2 51.6 1.0 CD2 A:HIS83 2.8 53.0 1.0 CE1 A:HIS83 2.8 53.0 1.0 CB A:CYS90 3.0 57.2 1.0 CB A:CYS74 3.3 51.6 1.0 CB A:CYS77 3.5 51.7 1.0 N A:CYS77 3.7 51.7 1.0 CG A:HIS83 3.9 53.0 1.0 ND1 A:HIS83 3.9 53.0 1.0 CA A:CYS77 4.0 51.7 1.0 CA A:CYS90 4.1 57.2 1.0 CA A:CYS74 4.7 51.6 1.0 C A:TYR76 4.7 44.7 1.0 CB A:LYS93 4.7 48.8 1.0 CB A:TYR76 4.8 44.7 1.0 N A:LYS93 4.9 48.8 1.0 O A:CYS74 5.0 51.6 1.0

Zinc binding site 2 out of 5 in the Cryo-Em Structure of the Monomeric Form of Sars-Cov-2 NSP10-NSP14 (E191A)-Rna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of the Monomeric Form of Sars-Cov-2 NSP10-NSP14 (E191A)-Rna Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn202 b:217.1 occ:1.00 SG A:CYS128 2.1 109.1 1.0 SG A:CYS130 2.2 128.2 1.0 SG A:CYS120 2.3 118.8 1.0 SG A:CYS117 2.6 112.9 1.0 CB A:CYS120 3.6 118.8 1.0 CB A:CYS117 3.6 112.9 1.0 CB A:CYS128 3.6 109.1 1.0 CB A:CYS130 3.7 128.2 1.0 CG2 A:VAL119 4.1 122.6 1.0 CA A:CYS128 4.1 109.1 1.0 N A:SER129 4.3 115.3 1.0 N A:CYS120 4.3 118.8 1.0 C A:CYS128 4.4 109.1 1.0 CA A:CYS120 4.5 118.8 1.0 N A:CYS130 4.7 128.2 1.0 CA A:CYS130 4.8 128.2 1.0 C A:SER129 4.9 115.3 1.0

Zinc binding site 3 out of 5 in the Cryo-Em Structure of the Monomeric Form of Sars-Cov-2 NSP10-NSP14 (E191A)-Rna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Cryo-Em Structure of the Monomeric Form of Sars-Cov-2 NSP10-NSP14 (E191A)-Rna Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn603 b:118.7 occ:1.00 ND1 B:HIS229 1.8 64.4 1.0 SG B:CYS226 2.2 56.9 1.0 SG B:CYS210 2.3 73.1 1.0 SG B:CYS207 2.7 62.3 1.0 CE1 B:HIS229 2.7 64.4 1.0 CB B:CYS210 2.8 73.1 1.0 CG B:HIS229 2.8 64.4 1.0 CB B:HIS229 3.5 64.4 1.0 CB B:CYS226 3.7 56.9 1.0 NE2 B:HIS229 3.8 64.4 1.0 CD2 B:HIS229 3.9 64.4 1.0 CB B:CYS207 3.9 62.3 1.0 N B:CYS226 4.1 56.9 1.0 O B:CYS208 4.2 72.3 1.0 N B:HIS229 4.3 64.4 1.0 CA B:CYS210 4.3 73.1 1.0 CA B:CYS226 4.5 56.9 1.0 CA B:HIS229 4.6 64.4 1.0 CB B:HIS228 4.8 55.7 1.0 NH1 B:ARG212 4.9 61.0 1.0 N B:CYS210 5.0 73.1 1.0 C B:CYS226 5.0 56.9 1.0

Zinc binding site 4 out of 5 in the Cryo-Em Structure of the Monomeric Form of Sars-Cov-2 NSP10-NSP14 (E191A)-Rna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Cryo-Em Structure of the Monomeric Form of Sars-Cov-2 NSP10-NSP14 (E191A)-Rna Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn604 b:86.9 occ:1.00 ND1 B:HIS264 1.8 52.6 1.0 NE2 B:HIS257 1.8 56.7 1.0 SG B:CYS279 2.2 44.2 1.0 SG B:CYS261 2.3 65.1 1.0 CE1 B:HIS264 2.7 52.6 1.0 CE1 B:HIS257 2.8 56.7 1.0 CD2 B:HIS257 2.9 56.7 1.0 CG B:HIS264 3.0 52.6 1.0 CB B:CYS261 3.0 65.1 1.0 CB B:CYS279 3.2 44.2 1.0 CB B:HIS264 3.6 52.6 1.0 NE2 B:HIS264 3.9 52.6 1.0 ND1 B:HIS257 4.0 56.7 1.0 CG B:HIS257 4.0 56.7 1.0 CD2 B:HIS264 4.0 52.6 1.0 N B:HIS264 4.3 52.6 1.0 CA B:CYS261 4.5 65.1 1.0 CA B:HIS264 4.6 52.6 1.0 CA B:CYS279 4.6 44.2 1.0 N B:ASP415 4.7 60.5 1.0 C B:CYS261 4.9 65.1 1.0

Zinc binding site 5 out of 5 in the Cryo-Em Structure of the Monomeric Form of Sars-Cov-2 NSP10-NSP14 (E191A)-Rna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Cryo-Em Structure of the Monomeric Form of Sars-Cov-2 NSP10-NSP14 (E191A)-Rna Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn605 b:184.1 occ:1.00 ND1 B:HIS487 1.8 135.4 1.0 SG B:CYS484 2.1 139.4 1.0 SG B:CYS477 2.2 138.2 1.0 SG B:CYS452 2.5 134.0 1.0 CE1 B:HIS487 2.8 135.4 1.0 CG B:HIS487 2.9 135.4 1.0 CB B:CYS477 3.0 138.2 1.0 CB B:CYS484 3.5 139.4 1.0 CB B:CYS452 3.5 134.0 1.0 CB B:HIS487 3.5 135.4 1.0 NE2 B:HIS487 3.9 135.4 1.0 CD2 B:HIS487 4.0 135.4 1.0 CA B:CYS452 4.0 134.0 1.0 CG2 B:THR475 4.3 139.5 1.0 N B:HIS487 4.3 135.4 1.0 CA B:CYS477 4.4 138.2 1.0 N B:CYS484 4.5 139.4 1.0 CA B:CYS484 4.5 139.4 1.0 CA B:HIS487 4.5 135.4 1.0 ND1 B:HIS486 4.6 135.8 1.0 N B:CYS477 4.7 138.2 1.0 C B:HIS486 4.8 135.8 1.0 O B:CYS484 4.9 139.4 1.0 CB B:HIS486 4.9 135.8 1.0 N B:CYS452 5.0 134.0 1.0

C.Liu, W.Shi, S.T.Becker, D.G.Schatz, B.Liu, Y.Yang. Structural Basis of Mismatch Recognition By A Sars-Cov-2 Proofreading Enzyme Science 2021.
ISSN: ESSN 1095-9203