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Covalent Screening Library

Covalent modifiers have attracted much attention in recent years; over 30% marketed drugs have this mode of action. The increased biochemical potency associated with an irreversible mechanism can actually lead to increased therapeutic profitability, as lower drug concentrations are required for effectiveness. Nevertheless, design of selective covalent modifiers is a difficult task since it is difficult to find the right balance between reactivity and selectivity

Enamine Covalent Screening Library has been extracted from the "Rule of Five" compliant subset of the Screening Collection using substructure searches of specified structural features (Figure 1). Active functionalities able to form covalent bonds with protein residues have been analyzed, and the “warheads” listed below were selected as optimal in terms of reactivity and essential stability. Additionally, the chemical environment of each reactive group was checked to be suitable for moderate reactivity of the compound. Molecules with non-druglike cores and structural features were removed from the library using internal structure filters and in-house elaborated rules. The final set of selected compounds has been evaluated manually to avoid too reactive entities and eliminate structural shortcomings of the substructure searches.

Parameters Range
MW 185 … 500
ClogP -2.0 … 4.0
TPSA < 145 Å2
HBD ≤ 4
HBA ≤ 8
RotB 0 … 5
Rings 1 …4
       Structural fragments used for the selection
  • Acrylamides, acrylonitriles
  • Activated terminal acetylenes
  • Cloracetamides, Alkyl halides
  • Epoxides, aziridines
  • Alkyl thioles, disulfides
  • β-lactams, -lactones
  • Sulfonyl fluorides/esters
  • Carbamates, activated Aryl ureas
  • 2-cyano/-Cl nitrogen heterocycles
  • Vinylsulfones, -sulfonamides
  • Boronic acids


Representative examples of molecules in the Library


Molecular properties of the Library

Mol Weight logP
Hb donors Hb acceptors
Rot. Bonds PSA

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