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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:

3zrk

2.370 Å

X-ray

2011-06-16

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Glycogen synthase kinase-3 beta
ID:GSK3B_HUMAN
AC:P49841
Organism:Homo sapiens
Reign:Eukaryota
TaxID:9606
EC Number:2.7.11.26


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:45.399
Number of residues:23
Including
Standard Amino Acids: 23
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.826516.375

% Hydrophobic% Polar
45.7554.25
According to VolSite

Ligand :
3zrk_1 Structure
HET Code: ZRK
Formula: C12H8N2O2
Molecular weight: 212.204 g/mol
DrugBank ID: -
Buried Surface Area:64.29 %
Polar Surface area: 55.13 Å2
Number of
H-Bond Acceptors: 2
H-Bond Donors: 1
Rings: 3
Aromatic rings: 2
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 1

Mass center Coordinates

XYZ
102.84124.9934-11.2711


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
C17CD1ILE- 624.410Hydrophobic
C13CBALA- 833.740Hydrophobic
O8NZLYS- 853.03153.57H-Bond
(Protein Donor)
C13CG2VAL- 1104.210Hydrophobic
C13CD1LEU- 1324.070Hydrophobic
N15NVAL- 1352.89156.63H-Bond
(Protein Donor)
C13CD1LEU- 1883.70Hydrophobic
C17CD2LEU- 1884.040Hydrophobic