Atomistry » Chlorine » PDB 5t77-5thp » 5tbc
Atomistry »
  Chlorine »
    PDB 5t77-5thp »
      5tbc »

Chlorine in PDB 5tbc: Precatalytic Ternary Complex of Human Dna Polymerase Beta with Gapped Dna Substrate, Incorporated (-)3TC-Mp and An Another Incoming (-)3TC- Tp Nucleotide.

Enzymatic activity of Precatalytic Ternary Complex of Human Dna Polymerase Beta with Gapped Dna Substrate, Incorporated (-)3TC-Mp and An Another Incoming (-)3TC- Tp Nucleotide.

All present enzymatic activity of Precatalytic Ternary Complex of Human Dna Polymerase Beta with Gapped Dna Substrate, Incorporated (-)3TC-Mp and An Another Incoming (-)3TC- Tp Nucleotide.:
2.7.7.7;

Protein crystallography data

The structure of Precatalytic Ternary Complex of Human Dna Polymerase Beta with Gapped Dna Substrate, Incorporated (-)3TC-Mp and An Another Incoming (-)3TC- Tp Nucleotide., PDB code: 5tbc was solved by R.Vyas, Z.Suo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 32.76 / 1.85
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 55.330, 79.530, 55.330, 90.00, 107.39, 90.00
R / Rfree (%) 22.8 / 27.9

Other elements in 5tbc:

The structure of Precatalytic Ternary Complex of Human Dna Polymerase Beta with Gapped Dna Substrate, Incorporated (-)3TC-Mp and An Another Incoming (-)3TC- Tp Nucleotide. also contains other interesting chemical elements:

Sodium (Na) 6 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Precatalytic Ternary Complex of Human Dna Polymerase Beta with Gapped Dna Substrate, Incorporated (-)3TC-Mp and An Another Incoming (-)3TC- Tp Nucleotide. (pdb code 5tbc). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total only one binding site of Chlorine was determined in the Precatalytic Ternary Complex of Human Dna Polymerase Beta with Gapped Dna Substrate, Incorporated (-)3TC-Mp and An Another Incoming (-)3TC- Tp Nucleotide., PDB code: 5tbc:

Chlorine binding site 1 out of 1 in 5tbc

Go back to Chlorine Binding Sites List in 5tbc
Chlorine binding site 1 out of 1 in the Precatalytic Ternary Complex of Human Dna Polymerase Beta with Gapped Dna Substrate, Incorporated (-)3TC-Mp and An Another Incoming (-)3TC- Tp Nucleotide.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Precatalytic Ternary Complex of Human Dna Polymerase Beta with Gapped Dna Substrate, Incorporated (-)3TC-Mp and An Another Incoming (-)3TC- Tp Nucleotide. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl407

b:36.7
occ:1.00
O D:HOH108 2.6 25.9 1.0
O A:HOH663 2.8 39.8 1.0
N A:HIS34 3.0 15.7 1.0
C A:ALA32 3.2 15.5 1.0
CA A:ALA32 3.3 15.6 1.0
CB A:HIS34 3.4 17.6 1.0
N A:ILE33 3.4 15.2 1.0
CB A:ALA32 3.5 15.9 1.0
N A:LYS35 3.5 15.6 1.0
CA A:HIS34 3.6 16.3 1.0
O A:ALA32 3.6 15.0 1.0
CD2 A:HIS34 3.7 18.7 1.0
CG A:HIS34 3.8 17.9 1.0
C A:HIS34 4.0 15.7 1.0
C A:ILE33 4.0 15.5 1.0
CG A:LYS35 4.2 17.7 1.0
CA A:ILE33 4.3 15.6 1.0
O A:HOH615 4.3 23.9 1.0
CB A:LYS35 4.7 17.3 1.0
CA A:LYS35 4.7 16.4 1.0
N A:ALA32 4.7 15.7 1.0
CG2 A:ILE33 4.8 16.6 1.0
O6 D:DG1 4.9 18.4 1.0
NE2 A:HIS34 4.9 19.6 1.0
ND1 A:HIS34 5.0 19.6 1.0

Reference:

A.J.Reed, R.Vyas, A.T.Raper, Z.Suo. Structural Insights Into the Post-Chemistry Steps of Nucleotide Incorporation Catalyzed By A Dna Polymerase. J. Am. Chem. Soc. V. 139 465 2017.
ISSN: ESSN 1520-5126
PubMed: 27959534
DOI: 10.1021/JACS.6B11258
Page generated: Fri Jul 26 17:23:27 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy