Rule of fives

To become familiar with Lipinski s Rule of Five"... 

In general, the first step in virtual screening is the filtering by the application of Lipinski s Rule of Five [20]. Lipinski s work was based on the results of profiling the calculated physical property data in a set of 2245 compounds chosen from the World Drug Index. Polymers, peptides, quaternary ammonium, and phosphates were removed from this data set. Statistical analysis of this data set showed that approximately 90% of the remaining compounds had ... 

The cutoff values of this Rtile of Five the thresholds are a multiple of five) differ slightly within the pharmaceutical industry. Sometimes the Rule of Five" is extended by a fifth condition ... 

All the compounds pass the Lipinksi Rule of Five and toxicity filters... 

Molecular structure has been shown to influence absorption. By examining the structural characteristics of drugs that were in use, certain common characteristics of well-absorbed molecules were identified, commonly referred to as the rule of five. Some investigators have used this as a basis for characterizing the drug-likeness of a lead chemical. Other factors also come into play including receptor activity, metabolism profile and for CNS-active compounds, an ability to cross the blood-brain barrier. 

In addition to the in vitro assays described above, physical properties should be calculated for all new compounds designed for synthesis. It is necessary to keep in mind the target values for leads, such as MW < 450, clogP < 4.0, and PSA < 80. It has been demonstrated that properties such as MW and clogP increase during optimization [26], so that a lead needs to have lower values for these properties than a drug candidate. Additional factors that make up the rule-of-five [27] as well as the number of rotatable bonds as described by Veber [28] can also be tracked. While... 

The genesis of in silico oral bioavailability predictions can be traced back to Lip-inski s Rule of Five and others qualitative attempts to describe drug-like molecules [13-15]. These processes are useful primarily as a qualitative tool in the early stage library design and in the candidate selection. Despite its large number of falsepositive results, Lipinski s Rule of Five has come into wide use as a qualitative tool to help the chemist design bioavailable compounds. It was concluded that compounds are most likely to have poor absorption when the molecular weight is >500, the calculated octan-l-ol/water partition coefficient (c log P) is >5, the number of H-bond donors is >5, and the number of H-bond acceptors is >10. Computation of these properties is now available as an ADME (absorption, distribution, metabolism, excretion) screen in commercial software such as Tsar (from Accelrys). The rule-of-5 should be seen as a qualitative, rather than quantitative, predictor of absorption and permeability [16, 17]. 

Assessing risk—from Rule of Five to Rule of 3/75... 

Interestingly, the PRCC is relatively free of compounds that violate Lipinski s Rule of Five (ROF) [15] as shown in Table 13.1. Similar ROF behavior has also been observed by Oprea [16] for other compound databases including the ACD and the MDDR (MDL Drug Data Report, MDL Information Systems, San Leandro, CA). 

Fig. 15.14 Web-based display of rule-of-five parameters calculated for all structures within a virtual library that contain a specific diversity reagent. The complete virtual library is composed of 2400 members derived from an array of40 x 60 reagents.

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