Atomistry » Zinc » PDB 4h8p-4hk6 » 4hhj
Atomistry »
  Zinc »
    PDB 4h8p-4hk6 »
      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: Wed Dec 16 05:22:13 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy