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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:

4f1s

3.000 Å

X-ray

2012-05-07

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform
ID:PK3CG_HUMAN
AC:P48736
Organism:Homo sapiens
Reign:Eukaryota
TaxID:9606
EC Number:2.7.1.153


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:57.890
Number of residues:35
Including
Standard Amino Acids: 35
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.981718.875

% Hydrophobic% Polar
55.8744.13
According to VolSite

Ligand :
4f1s_1 Structure
HET Code: F1S
Formula: C20H23ClN8O3S
Molecular weight: 490.966 g/mol
DrugBank ID: -
Buried Surface Area:59.83 %
Polar Surface area: 166.27 Å2
Number of
H-Bond Acceptors: 10
H-Bond Donors: 3
Rings: 4
Aromatic rings: 3
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 1
Rotatable Bonds: 6

Mass center Coordinates

XYZ
23.598815.01521.0126


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
C5CEMET- 8043.360Hydrophobic
C16CZ3TRP- 8123.750Hydrophobic
C3CD1ILE- 8313.890Hydrophobic
CL2CDLYS- 8334.40Hydrophobic
CL2CD2LEU- 8384.150Hydrophobic
C13CGTYR- 8673.550Hydrophobic
CL2CD1ILE- 8794.160Hydrophobic
C13CG2ILE- 8793.80Hydrophobic
C26CD1ILE- 8793.930Hydrophobic
C13CG2VAL- 8824.430Hydrophobic
N10NVAL- 8823.26171.92H-Bond
(Protein Donor)
N14OVAL- 8823.02143.6H-Bond
(Ligand Donor)
C20CG2THR- 8873.650Hydrophobic
C3SDMET- 9533.920Hydrophobic
C13CE1PHE- 9614.420Hydrophobic
C24CD1ILE- 9634.030Hydrophobic
C3CD1ILE- 9634.060Hydrophobic
C13CG2ILE- 9634.310Hydrophobic
C26CBASP- 9644.460Hydrophobic
CL2CBASP- 9644.140Hydrophobic