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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:

2qvy

2.760 Å

X-ray

2007-08-09

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:4-chlorobenzoyl CoA ligase
ID:Q8GN86_9BURK
AC:Q8GN86
Organism:Alcaligenes sp. AL3007
Reign:Bacteria
TaxID:206162
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
X100 %


Ligand binding site composition:

B-Factor:50.401
Number of residues:21
Including
Standard Amino Acids: 21
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
1.364293.625

% Hydrophobic% Polar
72.4127.59
According to VolSite

Ligand :
2qvy_1 Structure
HET Code: 34Z
Formula: C7H3Cl2O2
Molecular weight: 190.004 g/mol
DrugBank ID: -
Buried Surface Area:64.9 %
Polar Surface area: 40.12 Å2
Number of
H-Bond Acceptors: 2
H-Bond Donors: 0
Rings: 1
Aromatic rings: 1
Anionic atoms: 1
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 1

Mass center Coordinates

XYZ
10.211-47.7586-2.84391


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
CL4CZPHE- 1843.530Hydrophobic
O2NE2HIS- 2073.48132.47H-Bond
(Protein Donor)
C5CG2VAL- 2083.850Hydrophobic
C4CG2VAL- 2093.490Hydrophobic
CL3CZPHE- 2494.330Hydrophobic
C2CBALA- 2803.830Hydrophobic
CL4CGMET- 3103.610Hydrophobic
C5SDMET- 3104.050Hydrophobic
CL4CBASN- 3113.660Hydrophobic