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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:

2jiz

2.300 Å

X-ray

2007-07-03

Molecular Function:
Binding Site :

Uniprot Annotation

Name:ATP synthase subunit alpha, mitochondrialATP synthase subunit gamma, mitochondrial
ID:ATPA_BOVINATPG_BOVIN
AC:P19483P05631
Organism:Bos taurus
Reign:Eukaryota
TaxID:9913
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
I19 %
J19 %
M19 %
N44 %


Ligand binding site composition:

B-Factor:30.561
Number of residues:27
Including
Standard Amino Acids: 27
Non Standard Amino Acids: 0
Water Molecules: 0
Cofactors:
Metals:

Cavity properties

LigandabilityVolume (Å3)
1.028411.750

% Hydrophobic% Polar
64.7535.25
According to VolSite

Ligand :
2jiz_2 Structure
HET Code: STL
Formula: C14H12O3
Molecular weight: 228.243 g/mol
DrugBank ID: DB02709
Buried Surface Area:65.75 %
Polar Surface area: 60.69 Å2
Number of
H-Bond Acceptors: 3
H-Bond Donors: 3
Rings: 2
Aromatic rings: 2
Anionic atoms: 0
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 2

Mass center Coordinates

XYZ
46.6349-23.526661.1574


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
C11CBALA- 2563.990Hydrophobic
C13CG2THR- 2593.720Hydrophobic
C9CBLYS- 2604.140Hydrophobic
C5CGLYS- 2603.550Hydrophobic
C14CD1ILE- 2634.010Hydrophobic
C6CG2ILE- 2633.620Hydrophobic
C1CGGLU- 2643.810Hydrophobic
C3CBALA- 2783.630Hydrophobic
C4CG2VAL- 2794.120Hydrophobic
C10CG1VAL- 2794.370Hydrophobic
C11CGARG- 2914.240Hydrophobic
O1NGLU- 2923.12139.81H-Bond
(Protein Donor)
C2CBALA- 2934.480Hydrophobic