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Magnesium in PDB 3kd1: Closed Binary Complex of An RB69 GP43 Fingers Domain Mutant Complexed with An Acyclic Gmp Terminated Primer Template Pair.

Enzymatic activity of Closed Binary Complex of An RB69 GP43 Fingers Domain Mutant Complexed with An Acyclic Gmp Terminated Primer Template Pair.

All present enzymatic activity of Closed Binary Complex of An RB69 GP43 Fingers Domain Mutant Complexed with An Acyclic Gmp Terminated Primer Template Pair.:
2.7.7.7;

Protein crystallography data

The structure of Closed Binary Complex of An RB69 GP43 Fingers Domain Mutant Complexed with An Acyclic Gmp Terminated Primer Template Pair., PDB code: 3kd1 was solved by K.E.Zahn, S.Doublie, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.66
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 78.485, 121.657, 131.538, 90.00, 90.00, 90.00
R / Rfree (%) 20.8 / 24.8

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Closed Binary Complex of An RB69 GP43 Fingers Domain Mutant Complexed with An Acyclic Gmp Terminated Primer Template Pair. (pdb code 3kd1). 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 Closed Binary Complex of An RB69 GP43 Fingers Domain Mutant Complexed with An Acyclic Gmp Terminated Primer Template Pair., PDB code: 3kd1:

Magnesium binding site 1 out of 1 in 3kd1

Go back to Magnesium Binding Sites List in 3kd1
Magnesium binding site 1 out of 1 in the Closed Binary Complex of An RB69 GP43 Fingers Domain Mutant Complexed with An Acyclic Gmp Terminated Primer Template Pair.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Closed Binary Complex of An RB69 GP43 Fingers Domain Mutant Complexed with An Acyclic Gmp Terminated Primer Template Pair. within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg914

b:71.8
occ:1.00
O E:HOH1091 2.2 46.1 1.0
OE2 E:GLU116 2.4 43.8 1.0
OD2 E:ASP114 2.8 41.9 1.0
O E:HOH1099 3.2 33.4 1.0
CG E:ASP114 3.4 41.6 1.0
O E:ILE115 3.4 41.4 1.0
CD E:GLU116 3.4 43.4 1.0
ND2 E:ASN324 3.8 39.5 1.0
OD1 E:ASP114 3.8 41.8 1.0
OE1 E:GLU116 4.0 43.8 1.0
CB E:ASP114 4.3 41.3 1.0
OD2 E:ASP327 4.4 39.7 1.0
C E:ILE115 4.5 41.4 1.0
CG E:GLU116 4.5 42.3 1.0
N E:ILE115 4.8 41.2 1.0
CB E:ASP327 5.0 38.8 1.0
CG E:ASN324 5.0 39.2 1.0

Reference:

K.E.Zahn, E.P.Tchesnokov, M.Gotte, S.Doublie. Phosphonoformic Acid Inhibits Viral Replication By Trapping the Closed Form of the Dna Polymerase. J.Biol.Chem. V. 286 25246 2011.
ISSN: ISSN 0021-9258
PubMed: 21566148
DOI: 10.1074/JBC.M111.248864
Page generated: Mon Dec 14 08:22:00 2020

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