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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:

2isc

2.700 Å

X-ray

2006-10-17

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Purine nucleoside phosphorylase, putative
ID:A2E7Y6_TRIVA
AC:A2E7Y6
Organism:Trichomonas vaginalis
Reign:Eukaryota
TaxID:5722
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
D13 %
F87 %


Ligand binding site composition:

B-Factor:37.723
Number of residues:31
Including
Standard Amino Acids: 31
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.491867.375

% Hydrophobic% Polar
44.3655.64
According to VolSite

Ligand :
2isc_6 Structure
HET Code: 223
Formula: C12H18N5O2
Molecular weight: 264.304 g/mol
DrugBank ID: -
Buried Surface Area:73.29 %
Polar Surface area: 112.49 Å2
Number of
H-Bond Acceptors: 5
H-Bond Donors: 5
Rings: 3
Aromatic rings: 2
Anionic atoms: 0
Cationic atoms: 1
Rule of Five Violation: 0
Rotatable Bonds: 3

Mass center Coordinates

XYZ
-35.924814.2596-8.98484


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
O5'NE2HIS- 42.68173.31H-Bond
(Ligand Donor)
C3'CBMET- 644.170Hydrophobic
C4'SDMET- 643.850Hydrophobic
C5'CD1ILE- 714.370Hydrophobic
C5'CD1PHE- 1593.660Hydrophobic
C5'SDMET- 1804.090Hydrophobic
C3'SDMET- 1803.760Hydrophobic
O3'OE1GLU- 1812.72143.36H-Bond
(Protein Donor)
N6OD1ASP- 2043.18167.55H-Bond
(Ligand Donor)
N7OD2ASP- 2042.85161.99H-Bond
(Ligand Donor)