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A multi-fingerprint browser for the ZINC database.

Abstract：

:To confirm the activity of an initial small molecule 'hit compound' from an activity screening, one needs to probe the structure-activity relationships by testing close analogs. The multi-fingerprint browser presented here (http://dcb-reymond23.unibe.ch:8080/MCSS/) enables one to rapidly identify such close analogs among commercially available compounds in the ZINC database (>13 million molecules). The browser retrieves nearest neighbors of any query molecule in multi-dimensional chemical spaces defined by four different fingerprints, each of which represents relevant structural and pharmacophoric features in a different way: sFP (substructure fingerprint), ECFP4 (extended connectivity fingerprint), MQNs (molecular quantum numbers) and SMIfp (SMILES fingerprint). Distances are calculated using the city-block distance, a similarity measure that performs as well as Tanimoto similarity but is much faster to compute. The list of up to 1000 nearest neighbors of any query molecule is retrieved by the browser and can be then clustered using the K-means clustering algorithm to produce a focused list of analogs with likely similar bioactivity to be considered for experimental evaluation.

journal_name

Nucleic Acids Res

journal_title

Nucleic acids research

authors

Awale M,Reymond JL

doi

10.1093/nar/gku379

subject

Has Abstract

pub_date

2014-07-01 00:00:00

pages

W234-9

issue

Web Server issue

eissn

0305-1048

issn

1362-4962

pii

gku379

journal_volume

42

pub_type

杂志文章

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