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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:

4jtr

1.300 Å

X-ray

2013-03-24

Interactomes:
Molecular Function:
Binding Site :

Uniprot Annotation

Name:Aldo-keto reductase family 1 member C2
ID:AK1C2_HUMAN
AC:P52895
Organism:Homo sapiens
Reign:Eukaryota
TaxID:9606
EC Number:/


Chains:

Chain Name:Percentage of Residues
within binding site
A100 %


Ligand binding site composition:

B-Factor:20.006
Number of residues:23
Including
Standard Amino Acids: 21
Non Standard Amino Acids: 1
Water Molecules: 1
Cofactors: NAP
Metals:

Cavity properties

LigandabilityVolume (Å3)
1.067408.375

% Hydrophobic% Polar
57.0242.98
According to VolSite

Ligand :
4jtr_1 Structure
HET Code: IBP
Formula: C13H17O2
Molecular weight: 205.273 g/mol
DrugBank ID: DB09213
Buried Surface Area:56.61 %
Polar Surface area: 40.12 Å2
Number of
H-Bond Acceptors: 2
H-Bond Donors: 0
Rings: 1
Aromatic rings: 1
Anionic atoms: 1
Cationic atoms: 0
Rule of Five Violation: 0
Rotatable Bonds: 4

Mass center Coordinates

XYZ
-73.4871176.756202.483


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
C2CG2VAL- 543.440Hydrophobic
C12CG1VAL- 543.970Hydrophobic
O2OHTYR- 552.56160.27H-Bond
(Protein Donor)
O2NE2HIS- 1172.74147.82H-Bond
(Protein Donor)
C4CG1ILE- 1294.480Hydrophobic
C5CZ2TRP- 2273.520Hydrophobic
C7CD2LEU- 3064.030Hydrophobic
C6CD1LEU- 3084.440Hydrophobic
C7CD2LEU- 3083.280Hydrophobic
C9CD2LEU- 3084.440Hydrophobic
C7C4NNAP- 4024.230Hydrophobic