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

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

Resolution Low / High (Å)	48.43 / 1.79
Space group	P 21 2 21
Cell size a, b, c (Å), α, β, γ (°)	66.658, 70.492, 118.197, 90.00, 90.00, 90.00
R / Rfree (%)	18 / 21.3

The binding sites of Zinc atom in the Crystal Structure of Mers-Cov NSP16/NSP10 Complex Bound to M7GPPPA (pdb code 5ynf). 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 M7GPPPA, PDB code: 5ynf:
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 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 M7GPPPA within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn201 b:41.0 occ:1.00 NE2 B:HIS83 2.0 39.1 1.0 SG B:CYS77 2.3 40.8 1.0 SG B:CYS74 2.3 39.7 1.0 SG B:CYS90 2.3 46.2 1.0 CE1 B:HIS83 2.8 40.2 1.0 CD2 B:HIS83 3.1 40.8 1.0 CB B:CYS74 3.1 37.9 1.0 CB B:CYS90 3.2 48.6 1.0 CB B:CYS77 3.4 42.0 1.0 N B:CYS77 3.5 44.0 1.0 CA B:CYS77 3.9 41.8 1.0 ND1 B:HIS83 4.0 40.5 1.0 CG B:HIS83 4.1 43.7 1.0 CA B:CYS90 4.4 51.6 1.0 CB B:TYR76 4.5 41.5 1.0 C B:TYR76 4.5 45.1 1.0 O B:HOH335 4.6 47.5 1.0 CA B:CYS74 4.6 38.7 1.0 CB B:LYS93 4.7 39.4 1.0 CA B:TYR76 4.9 44.9 1.0 O B:CYS74 4.9 37.8 1.0 N B:TYR76 4.9 42.2 1.0 C B:CYS74 4.9 43.7 1.0 N B:LYS93 5.0 38.6 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Mers-Cov NSP16/NSP10 Complex Bound to 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 M7GPPPA within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn202 b:70.1 occ:1.00 SG B:CYS120 2.3 65.5 1.0 SG B:CYS130 2.3 71.3 1.0 SG B:CYS128 2.3 64.1 1.0 SG B:CYS117 2.3 74.6 1.0 CB B:CYS117 3.1 68.9 1.0 CB B:CYS120 3.2 69.5 1.0 CB B:CYS128 3.4 61.2 1.0 CB B:CYS130 3.4 76.5 1.0 CG2 B:VAL119 3.5 84.8 1.0 N B:CYS120 3.6 74.2 1.0 CA B:CYS120 4.0 71.3 1.0 CA B:CYS128 4.1 67.0 1.0 N B:CYS130 4.1 81.7 1.0 N B:ASN129 4.4 76.8 1.0 CA B:CYS130 4.4 82.4 1.0 C B:CYS128 4.5 72.5 1.0 CA B:CYS117 4.6 69.4 1.0 C B:VAL119 4.6 78.5 1.0 C B:CYS120 4.8 68.6 1.0 CB B:VAL119 4.8 84.6 1.0 N B:VAL119 5.0 85.5 1.0 N B:GLN121 5.0 70.4 1.0

S.M.Wei, L.Yang, Z.H.Ke, Z.Z.Yang, Q.Y.Liu, 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.