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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:

1q1g

2.020 Å

X-ray

2003-07-19

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Purine nucleoside phosphorylase
ID:Q8I3X4_PLAF7
AC:Q8I3X4
Organism:Plasmodium falciparum
Reign:Eukaryota
TaxID:36329
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
A18 %
B82 %


Ligand binding site composition:

B-Factor:31.879
Number of residues:41
Including
Standard Amino Acids: 39
Non Standard Amino Acids: 0
Water Molecules: 2
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
0.610901.125

% Hydrophobic% Polar
44.5755.43
According to VolSite

Ligand :
1q1g_2 Structure
HET Code: MTI
Formula: C12H17N4O3S
Molecular weight: 297.353 g/mol
DrugBank ID: DB03881
Buried Surface Area:76.19 %
Polar Surface area: 139.62 Å2
Number of
H-Bond Acceptors: 5
H-Bond Donors: 5
Rings: 3
Aromatic rings: 1
Anionic atoms: 0
Cationic atoms: 1
Rule of Five Violation: 0
Rotatable Bonds: 3

Mass center Coordinates

XYZ
23.7534-12.514188.4107


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
C3'CG1VAL- 664.170Hydrophobic
CSCG1VAL- 663.540Hydrophobic
CSCG2VAL- 733.440Hydrophobic
CSCD1TYR- 1603.380Hydrophobic
C5'CE1TYR- 1603.910Hydrophobic
C2'CBGLU- 1824.140Hydrophobic
CSSDMET- 1833.440Hydrophobic
C2'CGMET- 1833.750Hydrophobic
C3'SDMET- 1833.760Hydrophobic
O2'NMET- 1832.95139.35H-Bond
(Protein Donor)
O2'OE2GLU- 1843.5120.84H-Bond
(Protein Donor)
O3'OE2GLU- 1842.72163.53H-Bond
(Protein Donor)
N7OD1ASP- 2062.73149.73H-Bond
(Ligand Donor)
O6OHOH- 6772.59179.97H-Bond
(Protein Donor)