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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:

1fp1

1.820 Å

X-ray

2000-08-29

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Isoliquiritigenin 2'-O-methyltransferase
ID:CHOMT_MEDSA
AC:P93324
Organism:Medicago sativa
Reign:Eukaryota
TaxID:3879
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
D100 %


Ligand binding site composition:

B-Factor:33.735
Number of residues:24
Including
Standard Amino Acids: 21
Non Standard Amino Acids: 0
Water Molecules: 3
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
1.2941471.500

% Hydrophobic% Polar
62.8437.16
According to VolSite

Ligand :
1fp1_1 Structure
HET Code: HCC
Formula: C15H12O4
Molecular weight: 256.253 g/mol
DrugBank ID: DB03285
Buried Surface Area:53.34 %
Polar Surface area: 77.76 Å2
Number of
H-Bond Acceptors: 4
H-Bond Donors: 3
Rings: 2
Aromatic rings: 2
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 3

Mass center Coordinates

XYZ
5.94395-13.472953.5285


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
C8CZPHE- 1354.080Hydrophobic
C15CBPHE- 1354.120Hydrophobic
C4SDMET- 1894.390Hydrophobic
C5CEMET- 1893.890Hydrophobic
C15CG2VAL- 1923.690Hydrophobic
C13CG1VAL- 1923.780Hydrophobic
C11CG1VAL- 1923.840Hydrophobic
C11CD2LEU- 3253.730Hydrophobic
C8CD2LEU- 3284.360Hydrophobic
C3CD2LEU- 3283.60Hydrophobic
C4SDMET- 3294.110Hydrophobic
O19OG1THR- 3322.6145.91H-Bond
(Protein Donor)
C1CG2THR- 33240Hydrophobic
O10OHOH- 20183.04133.99H-Bond
(Protein Donor)