Zinc in PDB 5ynm: Crystal Structure of Mers-Cov NSP16/NSP10 Complex Bound to Sam and M7GPPPA

The structure of Crystal Structure of Mers-Cov NSP16/NSP10 Complex Bound to Sam and M7GPPPA, PDB code: 5ynm was solved by S.M.Wei, L.Yang, Z.H.Ke, D.Y.Guo, C.P.Fan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.76 / 1.68
Space group	P 21 2 21
Cell size a, b, c (Å), α, β, γ (°)	67.713, 70.024, 120.131, 90.00, 90.00, 90.00
R / Rfree (%)	18 / 19.9

The binding sites of Zinc atom in the Crystal Structure of Mers-Cov NSP16/NSP10 Complex Bound to Sam and M7GPPPA (pdb code 5ynm). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Mers-Cov NSP16/NSP10 Complex Bound to Sam and M7GPPPA, PDB code: 5ynm:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Mers-Cov NSP16/NSP10 Complex Bound to Sam and M7GPPPA


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 Mers-Cov NSP16/NSP10 Complex Bound to Sam and M7GPPPA within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn201 b:39.4 occ:1.00 NE2 B:HIS83 2.0 37.5 1.0 SG B:CYS74 2.3 38.1 1.0 SG B:CYS77 2.3 38.3 1.0 SG B:CYS90 2.4 41.3 1.0 CE1 B:HIS83 3.0 35.5 1.0 CD2 B:HIS83 3.0 41.9 1.0 CB B:CYS74 3.2 34.5 1.0 CB B:CYS90 3.3 41.6 1.0 CB B:CYS77 3.4 33.2 1.0 N B:CYS77 3.5 36.8 1.0 CA B:CYS77 3.9 33.1 1.0 ND1 B:HIS83 4.1 37.9 1.0 CG B:HIS83 4.1 40.2 1.0 CA B:CYS90 4.4 43.7 1.0 CB B:TYR76 4.4 39.8 1.0 C B:TYR76 4.5 38.5 1.0 CA B:CYS74 4.6 36.8 1.0 CB B:LYS93 4.7 36.7 1.0 O B:HOH344 4.8 49.1 1.0 CA B:TYR76 4.9 40.7 1.0 O B:HOH333 4.9 47.4 1.0 N B:LYS93 5.0 38.0 1.0 C B:CYS74 5.0 35.8 1.0 N B:TYR76 5.0 42.3 1.0 O B:CYS74 5.0 37.2 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Mers-Cov NSP16/NSP10 Complex Bound to Sam and M7GPPPA


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 Mers-Cov NSP16/NSP10 Complex Bound to Sam and M7GPPPA within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn202 b:66.8 occ:1.00 SG B:CYS120 2.3 61.8 1.0 SG B:CYS130 2.3 66.0 1.0 SG B:CYS117 2.3 70.3 1.0 SG B:CYS128 2.3 64.8 1.0 CB B:CYS117 3.1 66.8 1.0 CB B:CYS120 3.1 62.3 1.0 CB B:CYS130 3.2 67.8 1.0 CB B:CYS128 3.4 63.3 1.0 N B:CYS120 3.8 69.6 1.0 CG1 B:VAL119 3.9 76.7 1.0 N B:CYS130 4.0 71.9 1.0 CA B:CYS120 4.0 65.7 1.0 CA B:CYS128 4.1 63.6 1.0 CA B:CYS130 4.2 73.2 1.0 N B:ASN129 4.5 69.3 1.0 C B:CYS128 4.5 64.7 1.0 CA B:CYS117 4.6 67.1 1.0 C B:CYS120 4.8 63.6 1.0 C B:VAL119 4.9 74.2 1.0

S.M.Wei, L.Yang, Z.H.Ke, Q.Y.Liu, Z.Z.Yang, Y.Chen, D.Y.Guo, C.P.Fan. Structural Insights Into the Molecular Mechanism of Mers Coronavirus Rna Ribose 2'-O-Methylation By NSP16/NSP10 Protein Complex To Be Published.