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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:

3arw

1.500 Å

X-ray

2010-12-09

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Chitinase A
ID:Q9AMP1_VIBHA
AC:Q9AMP1
Organism:Vibrio harveyi
Reign:Bacteria
TaxID:669
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:13.062
Number of residues:19
Including
Standard Amino Acids: 17
Non Standard Amino Acids: 0
Water Molecules: 2
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.3531019.250

% Hydrophobic% Polar
41.0658.94
According to VolSite

Ligand :
3arw_1 Structure
HET Code: CTI
Formula: C21H18NO4
Molecular weight: 348.372 g/mol
DrugBank ID: -
Buried Surface Area:34.11 %
Polar Surface area: 40.79 Å2
Number of
H-Bond Acceptors: 4
H-Bond Donors: 0
Rings: 5
Aromatic rings: 4
Anionic atoms: 0
Cationic atoms: 1
Rule of Five Violation: 0
Rotatable Bonds: 2

Mass center Coordinates

XYZ
17.4525-9.1620822.9089


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
C21CBTRP- 2753.990Hydrophobic
C14CBTRP- 2754.180Hydrophobic
DuArDuArTRP- 2753.670Aromatic Face/Face
DuArDuArTRP- 2753.970Aromatic Face/Face
C19CG2THR- 2764.080Hydrophobic
C21CG2THR- 2763.790Hydrophobic
C7CBASP- 3924.070Hydrophobic
C25CBTRP- 3974.450Hydrophobic
C22CBTRP- 3973.690Hydrophobic
DuArDuArTRP- 3973.840Aromatic Face/Face