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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:

3zrm

2.490 Å

X-ray

2011-06-17

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:40.119
Number of residues:25
Including
Standard Amino Acids: 25
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.936526.500

% Hydrophobic% Polar
53.2146.79
According to VolSite

Ligand :
3zrm_1 Structure
HET Code: ZRM
Formula: C18H12N2O2S
Molecular weight: 320.365 g/mol
DrugBank ID: -
Buried Surface Area:53.66 %
Polar Surface area: 90.46 Å2
Number of
H-Bond Acceptors: 3
H-Bond Donors: 2
Rings: 4
Aromatic rings: 3
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 2

Mass center Coordinates

XYZ
105.56623.8524-11.588


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
C19CD1ILE- 624.220Hydrophobic
C4CZPHE- 673.470Hydrophobic
S16CG1VAL- 704.130Hydrophobic
C5CG2VAL- 704.340Hydrophobic
C23CBALA- 833.740Hydrophobic
O12NZLYS- 853.29157.36H-Bond
(Protein Donor)
C23CD1LEU- 1324.240Hydrophobic
N21NVAL- 1352.9157.26H-Bond
(Protein Donor)
C19CD2LEU- 1884.330Hydrophobic
C23CD1LEU- 1883.850Hydrophobic