Atomistry » Zinc » PDB 4h9d-4hki » 4hhj
Atomistry »
  Zinc »
    PDB 4h9d-4hki »
      4hhj »

Zinc in PDB 4hhj: Dengue Serotype 3 Rna-Dependent Rna Polymerase

Enzymatic activity of Dengue Serotype 3 Rna-Dependent Rna Polymerase

All present enzymatic activity of Dengue Serotype 3 Rna-Dependent Rna Polymerase:
2.7.7.48;

Protein crystallography data

The structure of Dengue Serotype 3 Rna-Dependent Rna Polymerase, PDB code: 4hhj was solved by C.G.Noble, J.Lescar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.85 / 1.79
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 161.320, 177.610, 57.820, 90.00, 90.00, 90.00
R / Rfree (%) 17.7 / 20.9

Zinc Binding Sites:

The binding sites of Zinc atom in the Dengue Serotype 3 Rna-Dependent Rna Polymerase (pdb code 4hhj). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Dengue Serotype 3 Rna-Dependent Rna Polymerase, PDB code: 4hhj:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 4hhj

Go back to Zinc Binding Sites List in 4hhj
Zinc binding site 1 out of 2 in the Dengue Serotype 3 Rna-Dependent Rna Polymerase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Dengue Serotype 3 Rna-Dependent Rna Polymerase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1001

b:22.4
occ:1.00
NE2 A:HIS714 2.0 24.3 1.0
NE2 A:HIS712 2.1 22.8 1.0
SG A:CYS847 2.3 24.6 1.0
SG A:CYS728 2.3 21.4 1.0
CE1 A:HIS714 3.0 24.4 1.0
CD2 A:HIS712 3.0 22.9 1.0
CD2 A:HIS714 3.1 23.9 1.0
CE1 A:HIS712 3.1 22.8 1.0
CB A:CYS728 3.1 17.4 1.0
CB A:CYS847 3.3 21.5 1.0
CG A:HIS712 4.2 21.3 1.0
ND1 A:HIS714 4.2 25.6 1.0
CG A:HIS714 4.2 23.3 1.0
ND1 A:HIS712 4.2 23.1 1.0
CD1 A:LEU839 4.3 24.6 1.0
O A:HOH1514 4.4 28.9 1.0
CA A:CYS728 4.4 17.1 1.0
O A:HOH1194 4.4 28.9 1.0
C A:CYS728 4.6 20.5 1.0
N A:ARG729 4.6 18.7 1.0
CA A:CYS847 4.7 21.5 1.0
NH2 A:ARG769 4.7 18.6 1.0
O A:HOH1256 4.8 32.9 1.0
O13 A:P6G1003 4.9 30.0 0.5

Zinc binding site 2 out of 2 in 4hhj

Go back to Zinc Binding Sites List in 4hhj
Zinc binding site 2 out of 2 in the Dengue Serotype 3 Rna-Dependent Rna Polymerase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Dengue Serotype 3 Rna-Dependent Rna Polymerase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1002

b:33.5
occ:1.00
NE2 A:HIS441 2.1 31.2 1.0
SG A:CYS449 2.2 35.0 1.0
OE1 A:GLU437 2.2 38.9 1.0
SG A:CYS446 2.3 35.1 1.0
CE1 A:HIS441 3.0 31.3 1.0
CD2 A:HIS441 3.1 31.3 1.0
CB A:CYS449 3.1 32.2 1.0
CD A:GLU437 3.1 46.2 1.0
CG A:GLU437 3.4 33.9 1.0
CB A:CYS446 3.5 31.1 1.0
N A:CYS449 3.7 35.7 1.0
CA A:CYS446 3.8 32.4 1.0
CA A:CYS449 4.0 33.1 1.0
N A:GLY447 4.1 38.5 1.0
ND1 A:HIS441 4.2 31.7 1.0
CG A:HIS441 4.2 30.7 1.0
OE2 A:GLU437 4.3 33.6 1.0
N A:SER448 4.4 40.0 1.0
C A:CYS446 4.4 39.7 1.0
O A:HOH1471 4.6 41.1 1.0
O A:HOH1207 4.6 33.1 1.0
C A:SER448 4.7 41.0 1.0
CG2 A:THR571 4.8 36.7 1.0
O A:LYS445 4.9 35.8 1.0
CB A:GLU437 5.0 30.5 1.0

Reference:

C.G.Noble, S.P.Lim, Y.L.Chen, C.W.Liew, L.Yap, J.Lescar, P.-Y.Shi. Conformational Flexibility of the Dengue Virus Rna-Dependent Rna Polymerase Revealed By A Complex with An Inhibitor J.Virol. V. 87 5291 2013.
ISSN: ISSN 0022-538X
PubMed: 23408636
DOI: 10.1128/JVI.00045-13
Page generated: Sun Oct 27 00:05:53 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