Magnesium in PDB 8vuo: Crystal Structure of Sars-Cov-2 NSP16/NSP10 in Complex with Cap-1 Rna

The structure of Crystal Structure of Sars-Cov-2 NSP16/NSP10 in Complex with Cap-1 Rna, PDB code: 8vuo was solved by A.Misra, R.Rahisuddin, Y.K.Gupta, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.70 / 2.39
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	111.747, 58.893, 117.021, 90, 95.48, 90
R / Rfree (%)	18 / 21.9

The structure of Crystal Structure of Sars-Cov-2 NSP16/NSP10 in Complex with Cap-1 Rna also contains other interesting chemical elements:

Zinc

(Zn)

4 atoms

The binding sites of Magnesium atom in the Crystal Structure of Sars-Cov-2 NSP16/NSP10 in Complex with Cap-1 Rna (pdb code 8vuo). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Sars-Cov-2 NSP16/NSP10 in Complex with Cap-1 Rna, PDB code: 8vuo:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Sars-Cov-2 NSP16/NSP10 in Complex with Cap-1 Rna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Sars-Cov-2 NSP16/NSP10 in Complex with Cap-1 Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg301 b:36.2 occ:1.00 O A:HOH540 1.9 38.2 1.0 OD1 A:ASN198 2.1 35.3 1.0 O E:HOH207 2.1 35.1 1.0 O E:HOH203 2.2 31.6 1.0 O E:HOH210 2.2 41.0 1.0 O A:HOH472 2.3 29.5 1.0 CG A:ASN198 3.2 39.4 1.0 ND2 A:ASN198 3.7 33.1 1.0 O A:HOH486 3.8 43.6 1.0 O E:HOH206 4.1 35.2 1.0 OP2 E:U2 4.1 37.4 1.0 OP1 E:U2 4.2 35.4 1.0 OG A:SER200 4.2 37.2 1.0 O2' E:U3 4.3 76.6 1.0 CB A:SER201 4.4 27.1 1.0 CB A:ASN198 4.4 33.2 1.0 O4' E:U3 4.4 51.4 1.0 OP1 E:A2M1 4.5 35.3 1.0 C1' E:U3 4.6 54.2 1.0 P E:U2 4.7 37.5 1.0 CA A:ASN198 4.7 36.2 1.0 O A:ASP32 4.7 43.4 1.0 C4' E:U3 4.8 55.5 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Sars-Cov-2 NSP16/NSP10 in Complex with Cap-1 Rna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Sars-Cov-2 NSP16/NSP10 in Complex with Cap-1 Rna within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg301 b:36.9 occ:1.00 O F:HOH208 2.0 38.9 1.0 O C:HOH537 2.1 41.5 1.0 OD1 C:ASN198 2.1 40.7 1.0 O F:HOH207 2.2 33.4 1.0 O F:HOH210 2.2 34.3 1.0 O C:HOH467 2.4 38.5 1.0 CG C:ASN198 3.2 39.3 1.0 O F:HOH209 3.7 45.4 1.0 ND2 C:ASN198 3.8 32.9 1.0 OG C:SER200 4.0 38.3 1.0 OP2 F:U2 4.2 37.6 1.0 OP1 F:U2 4.3 40.2 1.0 O2' F:U3 4.3 73.7 1.0 CB C:SER201 4.4 32.1 1.0 O F:HOH205 4.4 37.7 1.0 OP1 F:A2M1 4.4 37.0 1.0 CB C:ASN198 4.5 38.1 1.0 O4' F:U3 4.5 52.9 1.0 C1' F:U3 4.6 55.0 1.0 O C:ASP32 4.6 42.4 1.0 P F:U2 4.7 35.4 1.0 CA C:ASN198 4.7 32.2 1.0 C4' F:U3 4.9 56.5 1.0

A.Misra, R.Rahisuddin, Y.K.Gupta. Crystal Structure of Sars-Cov-2 NSP16/NSP10 in Complex with Cap-1 Rna To Be Published.