Magnesium in PDB 5cx6: Crystal Structure of Thosea Asigna Virus Rna-Dependent Rna Polymerase (Rdrp) Complexed with Cdp

The structure of Crystal Structure of Thosea Asigna Virus Rna-Dependent Rna Polymerase (Rdrp) Complexed with Cdp, PDB code: 5cx6 was solved by D.S.Ferrero, M.Buxaderas, J.F.Rodriguez, N.Verdaguer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	66.85 / 2.10
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	133.700, 149.600, 100.110, 90.00, 90.00, 90.00
R / Rfree (%)	18.4 / 23.2

The binding sites of Magnesium atom in the Crystal Structure of Thosea Asigna Virus Rna-Dependent Rna Polymerase (Rdrp) Complexed with Cdp (pdb code 5cx6). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Crystal Structure of Thosea Asigna Virus Rna-Dependent Rna Polymerase (Rdrp) Complexed with Cdp, PDB code: 5cx6:

Magnesium binding site 1 out of 1 in the Crystal Structure of Thosea Asigna Virus Rna-Dependent Rna Polymerase (Rdrp) Complexed with Cdp


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 Thosea Asigna Virus Rna-Dependent Rna Polymerase (Rdrp) Complexed with Cdp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg720 b:40.9 occ:1.00 O B:HOH916 2.5 28.0 1.0 O A:HOH813 2.7 17.6 1.0 O A:LEU232 2.8 22.6 1.0 CE1 B:TYR660 3.8 22.8 1.0 CD A:PRO237 3.8 23.6 1.0 CG A:PRO237 3.8 29.6 1.0 C A:LEU232 3.8 20.8 1.0 CE B:MET665 3.9 19.9 1.0 CB B:GLN663 3.9 44.1 1.0 N B:GLN663 4.0 30.1 1.0 CA A:ASP233 4.0 28.9 1.0 CG B:GLN663 4.1 47.5 1.0 OE1 B:GLN663 4.2 44.1 1.0 O B:ARG661 4.2 24.5 1.0 CD B:GLN663 4.2 47.8 1.0 O A:ASP233 4.3 27.4 1.0 C A:ASP233 4.4 29.8 1.0 CB A:PRO237 4.4 27.4 1.0 N A:ASP233 4.4 21.2 1.0 CA B:GLN663 4.5 28.9 1.0 OH B:TYR660 4.6 27.9 1.0 CD1 B:TYR660 4.6 27.9 1.0 OG A:SER202 4.7 26.0 1.0 CZ B:TYR660 4.7 26.5 1.0 OD1 A:ASP233 4.7 20.4 1.0 O B:GLN663 4.7 24.1 1.0 C B:LYS662 4.8 30.4 1.0 N A:PRO237 4.9 22.6 1.0 CA B:LYS662 5.0 28.5 1.0 NE2 B:GLN663 5.0 48.4 1.0 SD B:MET665 5.0 26.5 1.0

D.S.Ferrero, M.Buxaderas, J.F.Rodriguez, N.Verdaguer. The Structure of the Rna-Dependent Rna Polymerase of A Permutotetravirus Suggests A Link Between Primer-Dependent and Primer-Independent Polymerases. Plos Pathog. V. 11 05265 2015.
ISSN: ESSN 1553-7374
PubMed: 26625123
DOI: 10.1371/JOURNAL.PPAT.1005265