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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:

4eu9

1.480 Å

X-ray

2012-04-25

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Succinyl-CoA:acetate CoA-transferase
ID:SCACT_ACEAC
AC:B3EY95
Organism:Acetobacter aceti
Reign:Bacteria
TaxID:435
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:9.560
Number of residues:55
Including
Standard Amino Acids: 48
Non Standard Amino Acids: 0
Water Molecules: 7
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
1.109637.875

% Hydrophobic% Polar
40.7459.26
According to VolSite

Ligand :
4eu9_1 Structure
HET Code: COA
Formula: C21H32N7O16P3S
Molecular weight: 763.502 g/mol
DrugBank ID: DB01992
Buried Surface Area:45.34 %
Polar Surface area: 426.11 Å2
Number of
H-Bond Acceptors: 21
H-Bond Donors: 6
Rings: 3
Aromatic rings: 2
Anionic atoms: 4
Cationic atoms: 0
Rule of Five Violation: 3
Rotatable Bonds: 18

Mass center Coordinates

XYZ
-6.5254613.7053-26.0122


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
C6PCE1PHE- 923.730Hydrophobic
C2PCGGLU- 2944.460Hydrophobic
N6AOILE- 3642.75137.03H-Bond
(Ligand Donor)
C1BCD1ILE- 3644.440Hydrophobic
CDPCD1ILE- 3644.030Hydrophobic
CEPCD1ILE- 3643.940Hydrophobic
C1BCEMET- 3833.910Hydrophobic
C4BCEMET- 3833.950Hydrophobic
CEPCGMET- 3833.70Hydrophobic
O9PND2ASN- 3842.87166.04H-Bond
(Protein Donor)
N4POHOH- 5182.75163.92H-Bond
(Ligand Donor)
O9POHOH- 5352.75140.85H-Bond
(Protein Donor)
N6AOHOH- 5662.98163.49H-Bond
(Ligand Donor)
O5AOHOH- 5823.41179.97H-Bond
(Protein Donor)
O5POHOH- 7482.76148.18H-Bond
(Protein Donor)