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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:

3zc6

2.420 Å

X-ray

2012-11-16

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Tyrosine-protein kinase JAK3
ID:JAK3_HUMAN
AC:P52333
Organism:Homo sapiens
Reign:Eukaryota
TaxID:9606
EC Number:2.7.10.2


Chains:

Chain Name:Percentage of Residues
within binding site
C100 %


Ligand binding site composition:

B-Factor:43.722
Number of residues:35
Including
Standard Amino Acids: 35
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
1.2301231.875

% Hydrophobic% Polar
44.1155.89
According to VolSite

Ligand :
3zc6_3 Structure
HET Code: VFC
Formula: C22H19FN8O2
Molecular weight: 446.437 g/mol
DrugBank ID: -
Buried Surface Area:66.94 %
Polar Surface area: 132.59 Å2
Number of
H-Bond Acceptors: 6
H-Bond Donors: 2
Rings: 5
Aromatic rings: 4
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 4

Mass center Coordinates

XYZ
-9.992481.262187.35176


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
C33CD2LEU- 8284.320Hydrophobic
C24CBLEU- 8284.010Hydrophobic
C18CG2VAL- 8364.260Hydrophobic
N7OGLU- 9032.77175.39H-Bond
(Ligand Donor)
N4NLEU- 9053.13166.91H-Bond
(Protein Donor)
C28CBCYS- 9093.940Hydrophobic
F32SGCYS- 9093.630Hydrophobic
C26CD2LEU- 9564.130Hydrophobic
C22CBALA- 9664.420Hydrophobic
C22CBASP- 9674.210Hydrophobic