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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:

3q7j

2.910 Å

X-ray

2011-01-05

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Tricorn protease-interacting factor F3
ID:TRF3_THEAC
AC:O93655
Organism:Thermoplasma acidophilum
Reign:Archaea
TaxID:273075
EC Number:3.4.11


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:45.789
Number of residues:41
Including
Standard Amino Acids: 40
Non Standard Amino Acids: 1
Water Molecules: 0
Cofactors:
Metals: ZN

Cavity properties

LigandabilityVolume (Å3)
0.440789.750

% Hydrophobic% Polar
41.0358.97
According to VolSite

Ligand :
3q7j_1 Structure
HET Code: FBO
Formula: C23H31N4O5
Molecular weight: 443.516 g/mol
DrugBank ID: -
Buried Surface Area:55.45 %
Polar Surface area: 144.39 Å2
Number of
H-Bond Acceptors: 5
H-Bond Donors: 5
Rings: 2
Aromatic rings: 2
Anionic atoms: 0
Cationic atoms: 1
Rule of Five Violation: 0
Rotatable Bonds: 13

Mass center Coordinates

XYZ
35.3311-69.6002-37.0038


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
C5CGGLN- 1014.180Hydrophobic
C6CGGLN- 1013.450Hydrophobic
C3CBALA- 2293.250Hydrophobic
C8SDMET- 2324.360Hydrophobic
C7SDMET- 2323.950Hydrophobic
N12OE1GLU- 2332.8133.66H-Bond
(Ligand Donor)
N10OE1GLU- 2663.49166.22H-Bond
(Ligand Donor)
C15CGGLU- 2884.330Hydrophobic
O21NEARG- 3162.62157.49H-Bond
(Protein Donor)
C23CDARG- 3163.680Hydrophobic
C29CDARG- 3163.670Hydrophobic
C28CBGLU- 3483.310Hydrophobic
C23CBTYR- 3513.280Hydrophobic