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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:

2jkq

2.600 Å

X-ray

2008-08-29

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Focal adhesion kinase 1
ID:FAK1_CHICK
AC:Q00944
Organism:Gallus gallus
Reign:Eukaryota
TaxID:9031
EC Number:2.7.10.2


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:32.365
Number of residues:33
Including
Standard Amino Acids: 33
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
1.091475.875

% Hydrophobic% Polar
52.4847.52
According to VolSite

Ligand :
2jkq_1 Structure
HET Code: VG8
Formula: C30H37ClN7O2
Molecular weight: 563.113 g/mol
DrugBank ID: -
Buried Surface Area:55.11 %
Polar Surface area: 87.06 Å2
Number of
H-Bond Acceptors: 7
H-Bond Donors: 3
Rings: 6
Aromatic rings: 3
Anionic atoms: 0
Cationic atoms: 1
Rule of Five Violation: 1
Rotatable Bonds: 7

Mass center Coordinates

XYZ
10.39291.0139526.6241


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
CAOCD1ILE- 4284.330Hydrophobic
CALCD1ILE- 4284.10Hydrophobic
CASCG2ILE- 4284.290Hydrophobic
CBACBILE- 4283.710Hydrophobic
CAWCG2ILE- 4283.570Hydrophobic
CAOCG1VAL- 4364.470Hydrophobic
C5CBALA- 4523.640Hydrophobic
CL5CG2VAL- 4843.930Hydrophobic
CL5CBMET- 4993.80Hydrophobic
CAQCD1LEU- 5014.480Hydrophobic
CASCD1LEU- 5014.460Hydrophobic
N1NCYS- 5022.76170.26H-Bond
(Protein Donor)
NAHOCYS- 5022.73158.3H-Bond
(Ligand Donor)
NBIOE1GLU- 5063.620Ionic
(Ligand Cationic)
CBFCGGLU- 5064.440Hydrophobic
CBECGGLU- 5063.920Hydrophobic
CAVCGGLU- 5063.950Hydrophobic
CAJCD1LEU- 5534.30Hydrophobic
CANCD2LEU- 55340Hydrophobic
C5CD1LEU- 5533.390Hydrophobic
CL5CBASP- 5644.170Hydrophobic
CANCD1LEU- 5673.630Hydrophobic