Table 4.

Commonly used pharmacophore modeling programs.

Name	Developed by	Incorporated into software package	Methods	Drug design applications	Ref.
Catalyst	Accelrys Inc.	Discovery Studio	Ligand based, includes the two methods HipHop and HypoGen for pharmacophore perception Produces conformers using pre-enumerating method by the Poling algorithm Uses feature-based method to align molecules	Acetylcholinesterase inhibitors σ1 receptor ligands Tubulin inhibitors	[50] [51] [130]
DISCOtech	Tripos Inc.	SYBYL	Ligand based Produces conformers using pre-enumerating method by Concord and Confort Uses Bron–Kerbosh clique- detection algorithm to align molecules	Glycogen synthase kinase inhibitors SGLT2 inhibitors Ligands of AT2	[128] [131] [132]
LigandScout	Inte:Ligand†		Structure based Pharmacophoric feature points-based pattern- matching alignment algorithm	11 β-HSD1 inhibitors Pim1 inhibitors HIV-1 transcriptase inhibitors	[133] [134] [135]
MOE	Chemical Computing Group	MOE	Ligand based Produces conformers using pre-enumerating method by various methods ranging from molecular dynamics to stochastic methods and systematic search Uses property-based algorithm to align molecules	Antitubercular agents Reversal agents Antimalarial agents	[136] [137] [138]
PHASE	Schrödinger, Inc.	Schrödinger	Ligand based Produces conformers using pre-enumerating method by ConfGen Uses feature-based algorithm to align molecules	Inhibitors of dengue virus methyltransferase Selective MDR1 agents γ-aminobutyric acid G1 receptor ρ1 antagonists	[119] [139] [140]

^†See [250].