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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:

1q5k

1.940 Å

X-ray

2003-08-08

Activity from ChEMBL: What is pChEMBL ?
MinMeanMedianStandard DeviationMaxCount
pChEMBL:6.1106.9807.4200.6207.4203

List of CHEMBLId :

CHEMBL259850


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
B100 %


Ligand binding site composition:

B-Factor:38.899
Number of residues:23
Including
Standard Amino Acids: 23
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.941891.000

% Hydrophobic% Polar
42.4257.58
According to VolSite

Ligand :
1q5k_2 Structure
HET Code: TMU
Formula: C12H12N4O4S
Molecular weight: 308.313 g/mol
DrugBank ID: DB01950
Buried Surface Area:59.18 %
Polar Surface area: 137.31 Å2
Number of
H-Bond Acceptors: 5
H-Bond Donors: 2
Rings: 2
Aromatic rings: 2
Anionic atoms: 1
Cationic atoms: 1
Rule of Five Violation: 0
Rotatable Bonds: 5

Mass center Coordinates

XYZ
41.169747.349635.7529


Binding mode :
What is Poseview ?
  • 2D View
  • 3D View
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
S2CG2ILE- 624.40Hydrophobic
C17CG1ILE- 624.480Hydrophobic
C18CG2ILE- 623.760Hydrophobic
S2CG1VAL- 704.470Hydrophobic
N3NVAL- 1353.24166.34H-Bond
(Protein Donor)
N4OVAL- 1352.52160.48H-Bond
(Ligand Donor)
N9OVAL- 1353.2127.44H-Bond
(Ligand Donor)
N9OPRO- 1363.01135.75H-Bond
(Ligand Donor)
C16CDARG- 1414.140Hydrophobic
S2CD2LEU- 1883.860Hydrophobic