Magnesium in PDB 8wil: Crystal Structure of Jingmen Tick Virus Rna-Dependent Rna Polymerase (D55 Construct)

The structure of Crystal Structure of Jingmen Tick Virus Rna-Dependent Rna Polymerase (D55 Construct), PDB code: 8wil was solved by X.Wang, X.Jing, F.Deng, P.Gong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.76 / 2.10
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	61.519, 89.185, 121.768, 90, 90, 90
R / Rfree (%)	17.2 / 20.7

The binding sites of Magnesium atom in the Crystal Structure of Jingmen Tick Virus Rna-Dependent Rna Polymerase (D55 Construct) (pdb code 8wil). 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 Jingmen Tick Virus Rna-Dependent Rna Polymerase (D55 Construct), PDB code: 8wil:

Magnesium binding site 1 out of 1 in the Crystal Structure of Jingmen Tick Virus Rna-Dependent Rna Polymerase (D55 Construct)


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 Jingmen Tick Virus Rna-Dependent Rna Polymerase (D55 Construct) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1001 b:30.9 occ:0.71 O A:HOH1240 2.2 36.7 1.0 OD1 A:ASP698 2.3 31.6 1.0 O A:HOH1120 2.4 28.2 1.0 O A:LYS699 2.8 17.6 1.0 OG A:SER574 2.8 25.5 1.0 O A:SER745 3.1 21.8 1.0 CG A:ASP698 3.3 31.4 1.0 C A:LYS699 3.6 17.4 1.0 N A:LYS699 3.7 14.5 1.0 OD1 A:ASP576 3.8 31.7 1.0 O A:HOH1342 3.8 41.1 1.0 OD2 A:ASP698 3.8 37.4 1.0 CB A:SER574 4.0 23.6 1.0 CG2 A:VAL700 4.0 15.0 1.0 C A:SER745 4.1 21.5 1.0 O A:HOH1159 4.1 29.2 1.0 CA A:PHE746 4.2 16.4 1.0 CA A:LYS699 4.3 19.4 1.0 CA A:SER574 4.4 20.6 1.0 C A:SER574 4.4 18.4 1.0 C A:ASP698 4.5 17.8 1.0 CD1 A:PHE746 4.5 15.8 1.0 N A:VAL700 4.5 16.6 1.0 CB A:ASP698 4.5 24.7 1.0 N A:PHE746 4.6 16.7 1.0 CA A:ASP698 4.6 19.8 1.0 N A:GLU575 4.7 17.1 1.0 O A:SER574 4.8 17.7 1.0 CG A:ASP576 4.8 35.3 1.0 CB A:PHE746 4.8 13.7 1.0 O A:GLU575 4.9 18.8 1.0 CA A:VAL700 4.9 16.9 1.0

X.Wang, X.Jing, J.Shi, Q.Liu, S.Shen, P.P.Cheung, J.Wu, F.Deng, P.Gong. A Jingmenvirus Rna-Dependent Rna Polymerase Structurally Resembles the Flavivirus Counterpart But with Different Features at the Initiation Phase Nucleic Acids Res. 2024.
ISSN: ESSN 1362-4962