Zinc in PDB 7exm: The N-Terminal Crystal Structure of Sars-Cov-2 NSP2

The structure of The N-Terminal Crystal Structure of Sars-Cov-2 NSP2, PDB code: 7exm was solved by J.Ma, Z.Chen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.40 / 1.74
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	57.926, 159.603, 63.552, 90, 91.19, 90
R / Rfree (%)	19.6 / 22.5

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>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Zinc atom in the The N-Terminal Crystal Structure of Sars-Cov-2 NSP2 (pdb code 7exm). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 12 binding sites of Zinc where determined in the The N-Terminal Crystal Structure of Sars-Cov-2 NSP2, PDB code: 7exm:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 12 in the The N-Terminal Crystal Structure of Sars-Cov-2 NSP2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The N-Terminal Crystal Structure of Sars-Cov-2 NSP2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:27.7 occ:1.00 NE2 A:HIS55 2.0 28.6 1.0 NE2 A:HIS57 2.1 27.4 1.0 SG A:CYS21 2.3 29.2 1.0 SG A:CYS52 2.3 28.7 1.0 CE1 A:HIS57 3.0 27.3 1.0 CD2 A:HIS55 3.0 28.6 1.0 CE1 A:HIS55 3.0 28.6 1.0 CD2 A:HIS57 3.1 27.4 1.0 CB A:CYS21 3.1 30.8 1.0 CB A:CYS52 3.3 30.4 1.0 CD1 A:ILE22 3.9 32.0 1.0 ND1 A:HIS57 4.1 27.2 1.0 ND1 A:HIS55 4.1 28.5 1.0 CG A:HIS55 4.2 28.9 1.0 CG A:HIS57 4.2 27.2 1.0 CA A:CYS21 4.3 32.1 1.0 CG1 A:ILE22 4.4 32.0 1.0 C A:CYS21 4.4 32.4 1.0 N A:ILE22 4.5 32.2 1.0 CD1 A:TYR3 4.5 44.8 1.0 O A:HOH404 4.6 27.7 1.0 CA A:CYS52 4.6 31.2 1.0 N A:CYS52 4.9 29.8 1.0 CE1 A:TYR3 5.0 44.0 1.0

Zinc binding site 2 out of 12 in the The N-Terminal Crystal Structure of Sars-Cov-2 NSP2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The N-Terminal Crystal Structure of Sars-Cov-2 NSP2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn302 b:27.3 occ:1.00 SG A:CYS144 2.3 26.7 1.0 SG A:CYS165 2.3 27.9 1.0 SG A:CYS147 2.3 27.8 1.0 SG A:CYS162 2.3 28.1 1.0 CB A:CYS144 3.0 26.9 1.0 CB A:CYS162 3.2 29.2 1.0 CB A:CYS165 3.3 29.5 1.0 CB A:CYS147 3.3 28.2 1.0 N A:CYS165 3.8 32.7 1.0 N A:CYS147 3.8 28.3 1.0 CA A:CYS165 4.0 30.7 1.0 CA A:CYS147 4.1 28.5 1.0 CB A:PHE164 4.4 37.5 1.0 CA A:CYS144 4.5 27.1 1.0 CA A:CYS162 4.6 30.0 1.0 CB A:THR167 4.7 31.1 1.0 C A:CYS165 4.7 30.2 1.0 CB A:HIS146 4.8 29.0 1.0 OG1 A:THR167 4.8 30.9 1.0 C A:PHE164 4.8 35.1 1.0 N A:GLY166 4.8 30.4 1.0 C A:CYS147 4.9 28.6 1.0 C A:HIS146 4.9 28.4 1.0 N A:THR167 5.0 31.0 1.0 N A:GLY148 5.0 28.7 1.0 C A:CYS162 5.0 31.8 1.0 CA A:PHE164 5.0 36.5 1.0

Zinc binding site 3 out of 12 in the The N-Terminal Crystal Structure of Sars-Cov-2 NSP2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of The N-Terminal Crystal Structure of Sars-Cov-2 NSP2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn303 b:45.1 occ:1.00 NE2 A:HIS203 1.9 46.6 1.0 SG A:CYS191 2.3 42.9 1.0 SG A:CYS237 2.3 40.1 1.0 SG A:CYS194 2.3 46.7 1.0 CE1 A:HIS203 2.9 47.0 1.0 CD2 A:HIS203 2.9 47.2 1.0 CB A:CYS237 3.2 38.7 1.0 CB A:CYS191 3.3 43.9 1.0 CB A:CYS194 3.4 50.2 1.0 N A:CYS194 3.8 54.3 1.0 CA A:CYS194 4.0 54.0 1.0 ND1 A:HIS203 4.0 47.5 1.0 CG A:HIS203 4.0 48.3 1.0 OH A:TYR234 4.4 37.3 1.0 CD1 A:TYR208 4.4 37.8 1.0 CB A:ALA193 4.5 54.0 1.0 C A:ALA193 4.6 54.9 1.0 CA A:CYS191 4.7 45.6 1.0 CA A:CYS237 4.7 38.4 1.0 O A:CYS191 4.9 48.1 1.0 CE1 A:TYR208 4.9 37.0 1.0

Zinc binding site 4 out of 12 in the The N-Terminal Crystal Structure of Sars-Cov-2 NSP2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of The N-Terminal Crystal Structure of Sars-Cov-2 NSP2 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn301 b:25.6 occ:1.00 NE2 B:HIS57 2.0 25.1 1.0 NE2 B:HIS55 2.1 27.8 1.0 SG B:CYS52 2.3 26.9 1.0 SG B:CYS21 2.3 22.7 1.0 CE1 B:HIS57 3.0 25.1 1.0 CE1 B:HIS55 3.0 28.4 1.0 CD2 B:HIS57 3.1 25.1 1.0 CD2 B:HIS55 3.1 28.6 1.0 CB B:CYS52 3.2 28.5 1.0 CB B:CYS21 3.3 23.3 1.0 ND1 B:HIS57 4.1 25.0 1.0 ND1 B:HIS55 4.1 29.3 1.0 O B:HOH600 4.1 36.5 1.0 CD1 B:ILE22 4.2 22.0 1.0 CG B:HIS57 4.2 25.1 1.0 CG B:HIS55 4.2 29.6 1.0 CG1 B:ILE22 4.5 22.1 1.0 CA B:CYS52 4.6 29.7 1.0 CA B:CYS21 4.6 23.3 1.0 O B:HOH406 4.7 28.8 1.0 N B:ILE22 4.8 22.3 1.0 C B:CYS21 4.8 22.8 1.0 CD2 B:LEU19 4.8 21.7 1.0 N B:CYS52 4.9 28.8 1.0

Zinc binding site 5 out of 12 in the The N-Terminal Crystal Structure of Sars-Cov-2 NSP2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of The N-Terminal Crystal Structure of Sars-Cov-2 NSP2 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn302 b:24.0 occ:1.00 SG B:CYS144 2.3 23.4 1.0 SG B:CYS147 2.3 24.8 1.0 SG B:CYS165 2.3 26.0 1.0 SG B:CYS162 2.3 23.7 1.0 CB B:CYS144 3.1 24.3 1.0 CB B:CYS162 3.2 24.3 1.0 CB B:CYS147 3.2 26.4 1.0 CB B:CYS165 3.4 27.5 1.0 N B:CYS165 3.8 29.2 1.0 N B:CYS147 3.8 28.0 1.0 CB B:PHE164 4.0 34.1 1.0 CA B:CYS147 4.1 27.2 1.0 CA B:CYS165 4.1 28.6 1.0 CA B:CYS144 4.5 25.1 1.0 CA B:CYS162 4.6 25.1 1.0 CB B:HIS146 4.7 31.8 1.0 C B:PHE164 4.7 30.8 1.0 ND1 B:HIS146 4.7 35.1 1.0 OG1 B:THR167 4.8 29.8 1.0 CB B:THR167 4.8 29.6 1.0 C B:CYS165 4.8 28.8 1.0 CA B:PHE164 4.8 32.3 1.0 C B:CYS147 4.9 27.1 1.0 C B:HIS146 4.9 29.5 1.0 CG B:PHE164 4.9 36.8 1.0 N B:GLY166 5.0 29.0 1.0 C B:CYS162 5.0 26.5 1.0 N B:GLY148 5.0 26.9 1.0

Zinc binding site 6 out of 12 in the The N-Terminal Crystal Structure of Sars-Cov-2 NSP2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of The N-Terminal Crystal Structure of Sars-Cov-2 NSP2 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn303 b:24.0 occ:1.00 NE2 B:HIS203 2.1 25.6 1.0 SG B:CYS191 2.3 24.0 1.0 SG B:CYS237 2.3 24.1 1.0 SG B:CYS194 2.3 26.5 1.0 CE1 B:HIS203 3.1 25.9 1.0 CD2 B:HIS203 3.1 26.0 1.0 CB B:CYS191 3.2 24.9 1.0 CB B:CYS237 3.2 24.7 1.0 CB B:CYS194 3.4 27.4 1.0 N B:CYS194 3.8 28.2 1.0 CA B:CYS194 4.0 28.5 1.0 ND1 B:HIS203 4.2 26.3 1.0 CG B:HIS203 4.2 26.5 1.0 CD1 B:TYR208 4.3 21.0 1.0 OH B:TYR234 4.4 20.5 1.0 CB B:ALA193 4.5 28.0 1.0 CA B:CYS191 4.6 25.4 1.0 CA B:CYS237 4.7 25.3 1.0 C B:ALA193 4.8 28.4 1.0 CE1 B:TYR208 4.8 21.0 1.0 O B:HOH507 4.8 37.7 1.0 O B:HOH548 5.0 26.5 1.0

Zinc binding site 7 out of 12 in the The N-Terminal Crystal Structure of Sars-Cov-2 NSP2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of The N-Terminal Crystal Structure of Sars-Cov-2 NSP2 within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn301 b:23.9 occ:1.00 NE2 C:HIS57 2.0 23.1 1.0 NE2 C:HIS55 2.0 26.7 1.0 SG C:CYS52 2.3 23.9 1.0 SG C:CYS21 2.3 23.9 1.0 CE1 C:HIS57 3.0 22.8 1.0 CE1 C:HIS55 3.0 27.4 1.0 CD2 C:HIS57 3.0 22.9 1.0 CD2 C:HIS55 3.0 27.5 1.0 CB C:CYS21 3.2 23.8 1.0 CB C:CYS52 3.2 24.7 1.0 CD1 C:ILE22 4.0 23.8 1.0 ND1 C:HIS57 4.1 22.2 1.0 ND1 C:HIS55 4.1 28.0 1.0 CG C:HIS57 4.1 22.8 1.0 CG C:HIS55 4.1 28.1 1.0 O C:HOH516 4.3 31.3 1.0 CA C:CYS21 4.4 23.8 1.0 O C:HOH572 4.5 41.0 1.0 CG1 C:ILE22 4.6 23.9 1.0 C C:CYS21 4.6 23.9 1.0 CA C:CYS52 4.6 25.9 1.0 N C:ILE22 4.7 24.0 1.0 O C:HOH427 4.9 24.9 1.0

Zinc binding site 8 out of 12 in the The N-Terminal Crystal Structure of Sars-Cov-2 NSP2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of The N-Terminal Crystal Structure of Sars-Cov-2 NSP2 within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn302 b:48.1 occ:1.00 SG C:CYS147 2.3 44.8 1.0 SG C:CYS162 2.3 43.5 1.0 SG C:CYS165 2.3 50.0 1.0 SG C:CYS144 2.3 47.5 1.0 CB C:CYS144 3.2 47.8 1.0 CB C:CYS162 3.2 45.2 1.0 CB C:CYS147 3.3 44.7 1.0 CB C:CYS165 3.4 50.3 1.0 N C:CYS147 3.9 47.0 1.0 N C:CYS165 3.9 49.6 1.0 CA C:CYS147 4.2 45.0 1.0 CA C:CYS165 4.2 49.9 1.0 CA C:CYS162 4.6 45.3 1.0 CB C:HIS146 4.6 53.4 1.0 O C:HOH414 4.6 33.5 1.0 CA C:CYS144 4.7 48.3 1.0 C C:PHE164 4.8 49.2 1.0 CB C:PHE164 4.8 47.6 1.0 CB C:THR167 4.9 51.5 1.0 OG1 C:THR167 4.9 51.9 1.0 O C:CYS162 4.9 48.0 1.0 C C:CYS165 4.9 50.6 1.0 C C:CYS162 5.0 46.5 1.0 C C:HIS146 5.0 49.2 1.0

Zinc binding site 9 out of 12 in the The N-Terminal Crystal Structure of Sars-Cov-2 NSP2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of The N-Terminal Crystal Structure of Sars-Cov-2 NSP2 within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn303 b:48.8 occ:1.00 NE2 C:HIS203 2.0 54.9 1.0 SG C:CYS237 2.3 48.0 1.0 SG C:CYS191 2.3 48.7 1.0 SG C:CYS194 2.3 49.5 1.0 CD2 C:HIS203 3.0 56.2 1.0 CE1 C:HIS203 3.0 55.0 1.0 CB C:CYS237 3.3 50.3 1.0 CB C:CYS191 3.3 48.8 1.0 CB C:CYS194 3.4 51.3 1.0 N C:CYS194 3.7 53.5 1.0 CA C:CYS194 4.0 53.0 1.0 ND1 C:HIS203 4.1 56.3 1.0 CG C:HIS203 4.1 57.1 1.0 CD1 C:TYR208 4.3 50.7 1.0 OH C:TYR234 4.3 41.4 1.0 CB C:ALA193 4.4 52.0 1.0 CA C:CYS237 4.7 50.8 1.0 C C:ALA193 4.7 53.3 1.0 CA C:CYS191 4.7 50.1 1.0 CE1 C:TYR208 4.8 50.8 1.0 O C:HOH526 5.0 45.3 1.0

Zinc binding site 10 out of 12 in the The N-Terminal Crystal Structure of Sars-Cov-2 NSP2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of The N-Terminal Crystal Structure of Sars-Cov-2 NSP2 within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn301 b:34.1 occ:1.00 NE2 D:HIS57 2.0 33.1 1.0 NE2 D:HIS55 2.1 38.5 1.0 SG D:CYS21 2.3 27.5 1.0 SG D:CYS52 2.3 38.4 1.0 CE1 D:HIS57 3.0 33.0 1.0 CD2 D:HIS57 3.0 34.2 1.0 CD2 D:HIS55 3.1 40.0 1.0 CE1 D:HIS55 3.1 39.3 1.0 CB D:CYS21 3.2 26.6 1.0 CB D:CYS52 3.3 40.7 1.0 ND1 D:HIS57 4.1 33.4 1.0 CG D:HIS57 4.1 34.6 1.0 ND1 D:HIS55 4.1 40.8 1.0 CD1 D:ILE22 4.2 25.3 1.0 CG D:HIS55 4.2 41.5 1.0 O D:HOH611 4.3 40.1 1.0 CA D:CYS21 4.5 25.9 1.0 CG1 D:ILE22 4.6 25.1 1.0 CA D:CYS52 4.7 42.4 1.0 CD2 D:LEU19 4.8 24.5 1.0 N D:ILE22 4.8 25.0 1.0 C D:CYS21 4.8 25.9 1.0

J.Ma, Z.Chen. The N-Terminal Crystal Structure of Sars-Cov-2 NSP2 at 1.74A To Be Published.