Magnesium in PDB 2v54: Crystal Structure of Vaccinia Virus Thymidylate Kinase Bound to Tdp

All present enzymatic activity of Crystal Structure of Vaccinia Virus Thymidylate Kinase Bound to Tdp:
2.7.4.9;

The structure of Crystal Structure of Vaccinia Virus Thymidylate Kinase Bound to Tdp, PDB code: 2v54 was solved by C.Caillat, D.Topalis, L.A.Agrofoglio, S.Pochet, J.Balzarini, D.Deville-Bonne, P.Meyer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30 / 2.4
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	56.770, 55.590, 161.170, 90.00, 90.00, 90.00
R / Rfree (%)	21.63 / 27.6

The binding sites of Magnesium atom in the Crystal Structure of Vaccinia Virus Thymidylate Kinase Bound to Tdp (pdb code 2v54). 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 Vaccinia Virus Thymidylate Kinase Bound to Tdp, PDB code: 2v54:

Magnesium binding site 1 out of 1 in the Crystal Structure of Vaccinia Virus Thymidylate Kinase Bound to Tdp


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 Vaccinia Virus Thymidylate Kinase Bound to Tdp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1205 b:28.9 occ:1.00 O B:HOH2046 1.8 48.9 1.0 O2B B:TYD1207 2.0 25.1 0.6 O4 B:POP1206 2.3 40.9 0.7 OD1 B:ASP13 2.3 29.4 1.0 OE2 B:GLU145 2.5 26.0 1.0 O5 B:POP1206 3.3 43.4 0.7 PB B:TYD1207 3.3 26.4 0.6 P2 B:POP1206 3.3 41.4 0.7 CG B:ASP13 3.4 30.6 1.0 O3B B:TYD1207 3.5 29.6 0.6 CD B:GLU145 3.7 28.9 1.0 OE2 B:GLU142 3.8 37.2 1.0 CB B:ASP13 3.9 28.0 1.0 O1A B:TYD1207 3.9 39.8 0.4 O3A B:TYD1207 4.1 30.2 0.6 O6 B:POP1206 4.2 41.9 0.7 CG B:GLU145 4.3 28.8 1.0 C5' B:TYD1207 4.4 29.8 0.6 C5' B:TYD1207 4.4 35.6 0.4 C3' B:TYD1207 4.4 28.2 0.6 O3' B:TYD1207 4.5 34.6 0.4 C3' B:TYD1207 4.5 33.1 0.4 OD2 B:ASP13 4.5 29.7 1.0 O3 B:POP1206 4.5 61.3 0.2 O1B B:TYD1207 4.5 26.6 0.6 NZ B:LYS14 4.5 34.8 1.0 O B:POP1206 4.5 41.9 0.7 O3' B:TYD1207 4.5 31.0 0.6 CA B:ASP13 4.6 29.1 1.0 CD B:GLU142 4.6 38.7 1.0 OE1 B:GLU145 4.7 31.3 1.0 CE B:LYS14 4.7 35.3 1.0 C4' B:TYD1207 4.8 29.0 0.6 C4' B:TYD1207 4.8 34.0 0.4 O5' B:TYD1207 4.9 31.4 0.6 CB B:GLU142 4.9 29.8 1.0 O5' B:TYD1207 4.9 38.3 0.4 N B:LYS14 5.0 30.6 1.0

C.Caillat, D.Topalis, L.A.Agrofoglio, S.Pochet, J.Balzarini, D.Deville-Bonne, P.Meyer. Crystal Structure of Poxvirus Thymidylate Kinase: An Unexpected Dimerization Has Implications For Antiviral Therapy Proc.Nat.Acad.Sci.Usa V. 105 16900 2008.
ISSN: ISSN 0027-8424
PubMed: 18971333
DOI: 10.1073/PNAS.0804525105