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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Protein Data Bank Entry:

4iz0

2.220 Å

X-ray

2013-01-29

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Genome polyprotein
ID:POLG_HCVJ4
AC:O92972
Organism:Hepatitis C virus genotype 1b
Reign:Viruses
TaxID:420174
EC Number:2.7.7.48


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:33.361
Number of residues:29
Including
Standard Amino Acids: 29
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.337533.250

% Hydrophobic% Polar
32.9167.09
According to VolSite

Ligand :
4iz0_2 Structure
HET Code: 2BI
Formula: C10H6Cl3N2O3S
Molecular weight: 340.590 g/mol
DrugBank ID: -
Buried Surface Area:56.48 %
Polar Surface area: 82.65 Å2
Number of
H-Bond Acceptors: 3
H-Bond Donors: 0
Rings: 2
Aromatic rings: 2
Anionic atoms: 1
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 3

Mass center Coordinates

XYZ
-26.629545.788731.2354


Binding mode :
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Binding mode
BioSolveIT Image generated by PoseView
Protein
Binding Site
Ligand
Interaction pattern
hydrophobic (CA)
aromatic (CZ)
hydrogen bond acceptor (O)
hydrogen bond acceptor/donor (OG)
hydrogen bond donor (N)
positively ionized (NZ)
negatively ionized (OD1)
metal (ZN)

Legend:

Represent the protein/ligand binding mode, centered on the ligand
Dashed lines represents hydrogen bonds and metal interactions
Green residue labels for amino acids with hydrophobic contacts (green lines) to the ligand

Image generated using PoseView by BioSolveIT
BioSolveIT


LigandProteinInteraction
AtomAtomResidueDistance
(Å)
Angle (°)Type
CL7CE1PHE- 1933.290Hydrophobic
CL8CGARG- 2004.430Hydrophobic
CL7CBASN- 3163.720Hydrophobic
C4CBCYS- 3663.950Hydrophobic
C3SGCYS- 3663.370Hydrophobic
CL8CD2LEU- 3843.370Hydrophobic
CL9CD2LEU- 3844.030Hydrophobic
C16CBMET- 4144.030Hydrophobic
CL9CEMET- 4143.440Hydrophobic
CL9CZTYR- 4153.830Hydrophobic
O13NTYR- 4483.08145.9H-Bond
(Protein Donor)
CL7CE1TYR- 4484.210Hydrophobic