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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:

4joa

2.700 Å

X-ray

2013-03-18

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:ALK tyrosine kinase receptor
ID:ALK_HUMAN
AC:Q9UM73
Organism:Homo sapiens
Reign:Eukaryota
TaxID:9606
EC Number:2.7.10.1


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:53.745
Number of residues:31
Including
Standard Amino Acids: 31
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.919506.250

% Hydrophobic% Polar
58.6741.33
According to VolSite

Ligand :
4joa_1 Structure
HET Code: 3DK
Formula: C21H16F2N6
Molecular weight: 390.389 g/mol
DrugBank ID: -
Buried Surface Area:52.78 %
Polar Surface area: 64.31 Å2
Number of
H-Bond Acceptors: 3
H-Bond Donors: 1
Rings: 5
Aromatic rings: 5
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 4

Mass center Coordinates

XYZ
6.120114.130843.5452


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
C1CD1LEU- 11224.420Hydrophobic
C5CBALA- 11484.240Hydrophobic
C24CGLYS- 11504.080Hydrophobic
F29CE2PHE- 11643.990Hydrophobic
C25CBGLU- 11673.560Hydrophobic
F28CD1ILE- 11713.210Hydrophobic
C25CD1ILE- 11943.550Hydrophobic
F28CD1LEU- 11963.260Hydrophobic
N7OGLU- 11972.89162.94H-Bond
(Ligand Donor)
N3NMET- 11993.05159.7H-Bond
(Protein Donor)
C5CD1LEU- 12563.430Hydrophobic
C21CBASP- 12704.450Hydrophobic