Zinc in PDB 7s00: X-Ray Structure of the Phage AR9 Non-Virion Rna Polymerase Core

All present enzymatic activity of X-Ray Structure of the Phage AR9 Non-Virion Rna Polymerase Core:
2.7.7.6;

The structure of X-Ray Structure of the Phage AR9 Non-Virion Rna Polymerase Core, PDB code: 7s00 was solved by P.G.Leiman, M.L.Sokolova, A.Fraser, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.42 / 3.30
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	112.858, 166.27, 307.215, 90, 90, 90
R / Rfree (%)	21.9 / 25.8

The binding sites of Zinc atom in the X-Ray Structure of the Phage AR9 Non-Virion Rna Polymerase Core (pdb code 7s00). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the X-Ray Structure of the Phage AR9 Non-Virion Rna Polymerase Core, PDB code: 7s00:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the X-Ray Structure of the Phage AR9 Non-Virion Rna Polymerase Core


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of X-Ray Structure of the Phage AR9 Non-Virion Rna Polymerase Core within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn701 b:135.5 occ:1.00 SG D:CYS357 2.3 128.0 1.0 CB D:CYS350 2.4 145.5 1.0 SG D:CYS360 2.5 149.3 1.0 CA D:CYS350 2.7 160.2 1.0 SG D:CYS350 2.9 147.4 1.0 SG D:CYS294 2.9 188.3 1.0 CB D:CYS360 3.2 142.1 1.0 N D:CYS350 3.6 139.8 1.0 CB D:CYS294 3.6 164.8 1.0 C D:CYS350 3.8 168.4 1.0 CB D:CYS357 3.9 141.4 1.0 N D:ALA351 3.9 176.8 1.0 N D:CYS357 4.0 148.1 1.0 O D:SER346 4.3 132.4 1.0 C D:THR349 4.4 145.3 1.0 CA D:CYS360 4.5 145.6 1.0 CA D:CYS357 4.6 143.7 1.0 O D:THR349 4.6 145.8 1.0 NZ D:LYS359 4.7 161.6 1.0 N D:CYS360 4.7 157.7 1.0 OG D:SER296 4.8 172.8 1.0 O D:CYS350 4.9 154.2 1.0 CA D:CYS294 5.0 162.4 1.0

Zinc binding site 2 out of 2 in the X-Ray Structure of the Phage AR9 Non-Virion Rna Polymerase Core


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of X-Ray Structure of the Phage AR9 Non-Virion Rna Polymerase Core within 5.0Å range: probe atom residue distance (Å) B Occ F:Zn701 b:188.9 occ:1.00 SG F:CYS357 2.4 172.6 1.0 SG F:CYS350 2.4 232.2 1.0 CB F:CYS294 2.4 183.9 1.0 SG F:CYS294 2.6 176.4 1.0 CA F:CYS350 2.7 235.7 1.0 CB F:CYS350 2.9 227.1 1.0 N F:ALA351 3.1 195.0 1.0 CB F:CYS357 3.2 174.1 1.0 C F:CYS350 3.4 234.2 1.0 CA F:CYS294 3.7 189.9 1.0 SG F:CYS360 3.8 183.6 1.0 N F:CYS350 3.9 225.8 1.0 N F:CYS357 3.9 188.7 1.0 N F:CYS294 4.2 192.5 1.0 CA F:CYS357 4.2 176.2 1.0 O F:THR349 4.3 195.8 1.0 CA F:ALA351 4.3 176.7 1.0 CB F:CYS360 4.4 175.8 1.0 C F:THR349 4.5 184.7 1.0 OG F:SER296 4.6 204.7 1.0 O F:CYS350 4.6 226.5 1.0 CB F:ALA351 4.6 175.8 1.0 N F:SER352 4.8 155.0 1.0 C F:CYS294 4.9 188.5 1.0

A.Fraser, M.L.Sokolova, A.V.Drobysheva, J.V.Gordeeva, S.Borukhov, J.Jumper, K.V.Severinov, P.G.Leiman. Structural Basis of Template Strand Deoxyuridine Promoter Recognition By A Viral Rna Polymerase. Nat Commun V. 13 3526 2022.
ISSN: ESSN 2041-1723
PubMed: 35725571
DOI: 10.1038/S41467-022-31214-6