Fragment Library


Rule of 3 compliant compounds for fragment-based drug discovery

Highlights

  • More than 13,500 fragments to select from
  • A subset of approximately 5,000 fragments with high DMSO solubility
  • Fluorinated fragments for NMR and brominated fragments for X-ray crystallography

Summary

The ChemBridge® Fragment Library offers more than 13,500 compounds that can be individually selected, allowing researchers to build fragment sets of size and composition best suited to their research objectives and methodologies. ChemBridge can also assist in the selection of subsets including structurally diverse subsets. This collection of small molecule fragments provides compounds for use in fragment-based screening and drug discovery using high-throughput X-ray crystallography, NMR, SPR and high concentration bioassay methodologies. Compounds included in the Fragment Library collection were chosen based upon the commonly accepted Astex Rule of Three¹ criteria plus additional physiochemical property and substructure filters.

View Product Sheet

High Solubility Subset

For researchers that require fragments with higher solubility in DMSO (100mM or higher), ChemBridge can provide a file of approximately 5,000 fragments that represent the subset of fragments with higher DMSO solubility. Please email sales@chembridge.com to request a file of fragments that meet your minimum solubility requirement.


Fluorinated Subset

This subset of fragments offers an advantage for NMR-based fragment screens as 19F-NMR spectra have a wide range of chemical shifts which can be modified by the effects of neighboring atoms, particularly in the bound and unbound states of a fragment. Selection is based on the same criteria used for the overall Fragment Library collection.


Brominated Subset

A bromine-containing subset of fragments with potential use for X-ray crystallographic screening. The presence of the bromine atom in the X-ray analysis provides evidence for determining the location of the fragment bound to the target protein. Selection criteria is based on the same criteria used for the overall Fragment Library collection but with MW upper limit increased to 380 to allow for the contribution of the bromine atom.


Specifications

ChemBridge has applied Rule of Three considerations (MW ≤ 300, H-bond donors ≤ 3, H-bond acceptors ≤ 3, cLogP ≤ 3) along with a rotatable bond count limit (RB ≤ 3) and a TPSA limit (TPSA ≤ 120). For the Brominated Subset, the MW upper limit was adjusted to 380. For more details on the Fragment Library collection or subsets please contact sales@chembridge.com.


Format

  • To view all fragments, download the Fragment Library Part 1 file and the Fragment Library Part 2 file.
  • For a file of higher solubility fragments only, please email sales@chembridge.com.
  • Brominated and fluorinated fragments are available as separate files on the download page and also included in the Fragment Library Part 1 file.
  • Custom select fragments meeting your research objectives and methodologies
  • Fragments are available in mg or micromole (umol) amounts in dry format or as DMSO solutions (in standard or deuterated DMSO).
  • Delivery in vials, 96-well format minitube racks, or in 96-well or 384-well plates available.
  • Follow-up stock is available for resupply, subject to availability.

References

¹Carr, R.A.E. et al., Drug Discovery Today, 2005, 10, 987-992.


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