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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:

4ea0

2.120 Å

X-ray

2012-03-21

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Dehydrosqualene synthase
ID:CRTM_STAAU
AC:A9JQL9
Organism:Staphylococcus aureus
Reign:Bacteria
TaxID:1280
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:31.779
Number of residues:32
Including
Standard Amino Acids: 29
Non Standard Amino Acids: 3
Water Molecules: 0
Cofactors:
Metals: MG MG MG

Cavity properties

LigandabilityVolume (Å3)
0.347982.125

% Hydrophobic% Polar
42.6157.39
According to VolSite

Ligand :
4ea0_1 Structure
HET Code: 651
Formula: C19H22NO
Molecular weight: 280.384 g/mol
DrugBank ID: -
Buried Surface Area:62.05 %
Polar Surface area: 24.67 Å2
Number of
H-Bond Acceptors: 1
H-Bond Donors: 2
Rings: 5
Aromatic rings: 2
Anionic atoms: 0
Cationic atoms: 1
Rule of Five Violation: 0
Rotatable Bonds: 2

Mass center Coordinates

XYZ
26.178-14.3428.16929


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
CASCE2TYR- 414.20Hydrophobic
CALCBASP- 484.060Hydrophobic
OAAOVAL- 1333.36164.45H-Bond
(Ligand Donor)
CAJCBALA- 1343.750Hydrophobic
CAFCBVAL- 1373.830Hydrophobic
CAHCBVAL- 1373.870Hydrophobic
CAGCG1VAL- 1373.80Hydrophobic
CAJCG2VAL- 1373.860Hydrophobic
CAQCG1VAL- 1373.740Hydrophobic
CABCD1LEU- 1413.80Hydrophobic
CABCGLEU- 1603.950Hydrophobic
CAECD1LEU- 1643.50Hydrophobic