Hydroxyclomipramine glucuronide

A summary of the most common chemical descriptors (InChI Key and SMILES codes) for Hydroxyclomipramine glucuronide are summarized together with 3D and 2D structures and relevant physico-chemical properties.

What is the Hydroxyclomipramine glucuronide?

The molecule Hydroxyclomipramine glucuronide presents a molecular formula of C25H31ClN2O7 and its IUPAC name is (2S,3S,4S,5R,6S)-6-[[9-chloro-11-[3-(dimethylamino)propyl]-5,6-dihydrobenzo[b][1]benzazepin-4-yl]oxy]-3,4,5-trihydroxyoxane-2-carboxylic acid.

Hydroxyclomipramine glucuronide is a molecule that is formed when the body breaks down the drug clomipramine. Clomipramine is a tricyclic antidepressant that is used to treat conditions such as depression, anxiety, and obsessive-compulsive disorder. Hydroxyclomipramine glucuronide is thought to be responsible for some of the therapeutic effects of clomipramine..

3D structure

Cartesian coordinates

Geometry of Hydroxyclomipramine glucuronide in x, y and z coordinates (Å units) to copy/paste elsewhere. Generated with Open Babel software.

2D drawing


Hydroxyclomipramine glucuronide KLJBBCVPINUDOY-LYVDORBWSA-N chemical compound 2D structure molecule svg
Hydroxyclomipramine glucuronide


Molecule descriptors

IUPAC name(2S,3S,4S,5R,6S)-6-[[9-chloro-11-[3-(dimethylamino)propyl]-5,6-dihydrobenzo[b][1]benzazepin-4-yl]oxy]-3,4,5-trihydroxyoxane-2-carboxylic acid
InChI codeInChI=1S/C25H31ClN2O7/c1-27(2)11-4-12-28-17-5-3-6-19(16(17)10-8-14-7-9-15(26)13-18(14)28)34-25-22(31)20(29)21(30)23(35-25)24(32)33/h3,5-7,9,13,20-23,25,29-31H,4,8,10-12H2,1-2H3,(H,32,33)/t20-,21-,22+,23-,25+/m0/s1

Other names (synonyms)

IUPAC nomenclature provides a standardized method for naming chemical compounds. Although this system is widely used in chemistry, many chemical compounds have also other names commonly used in different contexts. These synonyms can come from a variety of sources and are used for a variety of purposes.

One common source of synonyms for chemical compounds is the common or trivial names, assigned on the basis of appearance, properties, or origin of the molecule.

Another source of synonyms are historical or obsolete names employed in the past, however replaced nowadays by more modern or standardized names.

In addition to common and historical names, chemical compounds may also have synonyms that are specific to a particular field or industry.

  • (2S,3S,4S,5R,6S)-6-[[9-chloro-11-[3-(dimethylamino)propyl]-5,6-dihydrobenzo[b][1]benzazepin-4-yl]oxy]-3,4,5-trihydroxyoxane-2-carboxylic acid
  • Hydroxyclomipramine glucuronide

Reference codes for other databases

There exist several different chemical codes commonly used in orded to identify molecules:
  • CHEBI:169575

Physico-Chemical properties

IUPAC name(2S,3S,4S,5R,6S)-6-[[9-chloro-11-[3-(dimethylamino)propyl]-5,6-dihydrobenzo[b][1]benzazepin-4-yl]oxy]-3,4,5-trihydroxyoxane-2-carboxylic acid
Molecular formulaC25H31ClN2O7
Molecular weight506.976
Melting point (ºC)
Boiling point (ºC)
Density (g/cm3)
Molar refractivity133.53
Topological polar surface area122.9

LogP and topological polar surface area (TPSA) values were estimated using Open Babel software.

The n-octanol/water partition coeficient (Kow) data is applied in toxicology and drug research. Kow values are used, to guess the environmental fate of persistent organic pollutants. High partition coefficients values, tend to accumulate in the fatty tissue of organisms. Molecules with a log(Kow) (or LogP) greater than 5 are considered to bioaccumulate.

TPSA values are the sum of the surface area over all polar atoms or molecules, mainly oxygen and nitrogen, also including hydrogen atoms.

In medicinal chemistry, TPSA is used to assess the ability of a drug to permeabilise cells.

For molecules to penetrate the blood-brain barrier (and act on receptors in the central nervous system), TPSA values below 90 Å2 are required. Thus, molecules with a polar surface area greater than 140 Å2 tend to be poorly permeable to cell membranes.