Literature DB >> 20694263

CoCoCo: a free suite of multiconformational chemical databases for high-throughput virtual screening purposes.

Alberto Del Rio1, Arménio Jorge Moura Barbosa, Fabiana Caporuscio, Giuseppe Felice Mangiatordi.   

Abstract

In the last few decades, virtual screening has proved to be able to guide the selection of new hit compounds with predefined biological activity. However, the usage of these computational techniques is often associated with resource- and time-consuming preparation protocols. In this work we present Commercial Compound Collection (CoCoCo), a suite of free and ready-to-use chemical databases to help setting up in silico screening projects. CoCoCo collects molecular structural information of commercial compounds from various chemical vendors by merging them in a unique, non-redundant format. CoCoCo databases are prepared with transparent and straightforward routines based on state-of-the-art computational tools that introduce comprehensive structural information about tautomers, stereoisomers and conformational states of each compound. CoCoCo suite is especially conceived as a set of valuable tools that may help a wide range of researchers who wish to initiate their own project in the field of computational drug design. CoCoCo suite is available free of charge at the website .

Mesh:

Year:  2010        PMID: 20694263     DOI: 10.1039/c0mb00039f

Source DB:  PubMed          Journal:  Mol Biosyst        ISSN: 1742-2051


  10 in total

1.  Discovery of new FXR agonists based on 6-ECDCA binding properties by virtual screening and molecular docking.

Authors:  Antonella Giancristofaro; Arménio J M Barbosa; Alessandra Ammazzalorso; Pasquale Amoia; Barbara De Filippis; Marialuigia Fantacuzzi; Letizia Giampietro; Cristina Maccallini; Rosa Amoroso
Journal:  Medchemcomm       Date:  2018-07-04       Impact factor: 3.597

Review 2.  Rejuvenating sirtuins: the rise of a new family of cancer drug targets.

Authors:  Santina Bruzzone; Marco Daniele Parenti; Alessia Grozio; Alberto Ballestrero; Inga Bauer; Alberto Del Rio; Alessio Nencioni
Journal:  Curr Pharm Des       Date:  2013       Impact factor: 3.116

3.  Chemoinformatic analysis of GRAS (Generally Recognized as Safe) flavor chemicals and natural products.

Authors:  José L Medina-Franco; Karina Martínez-Mayorga; Terry L Peppard; Alberto Del Rio
Journal:  PLoS One       Date:  2012-11-30       Impact factor: 3.240

Review 4.  Modulation of epigenetic targets for anticancer therapy: clinicopathological relevance, structural data and drug discovery perspectives.

Authors:  Federico Andreoli; Arménio Jorge Moura Barbosa; Marco Daniele Parenti; Alberto Del Rio
Journal:  Curr Pharm Des       Date:  2013       Impact factor: 3.310

Review 5.  Computer-aided Molecular Design of Compounds Targeting Histone Modifying Enzymes.

Authors:  Federico Andreoli; Alberto Del Rio
Journal:  Comput Struct Biotechnol J       Date:  2015-05-07       Impact factor: 7.271

6.  Structure-Based Scaffold Repurposing toward the Discovery of Novel Cholinesterase Inhibitors.

Authors:  Satish N Dighe; Mangapathiraju Tippana; Suzannah van Akker; Trudi A Collet
Journal:  ACS Omega       Date:  2020-11-24

Review 7.  Virtual Screening in the Identification of Sirtuins' Activity Modulators.

Authors:  Elena Abbotto; Naomi Scarano; Francesco Piacente; Enrico Millo; Elena Cichero; Santina Bruzzone
Journal:  Molecules       Date:  2022-09-01       Impact factor: 4.927

8.  A SMYD3 Small-Molecule Inhibitor Impairing Cancer Cell Growth.

Authors:  Alessia Peserico; Aldo Germani; Paola Sanese; Armenio Jorge Barbosa; Valeria Di Virgilio; Raffaella Fittipaldi; Edoardo Fabini; Carlo Bertucci; Greta Varchi; Mary Pat Moyer; Giuseppina Caretti; Alberto Del Rio; Cristiano Simone
Journal:  J Cell Physiol       Date:  2015-10       Impact factor: 6.384

9.  Inhibition of human dyskerin as a new approach to target ribosome biogenesis.

Authors:  Laura Rocchi; Arménio J M Barbosa; Carmine Onofrillo; Alberto Del Rio; Lorenzo Montanaro
Journal:  PLoS One       Date:  2014-07-10       Impact factor: 3.240

10.  LigandBox: A database for 3D structures of chemical compounds.

Authors:  Takeshi Kawabata; Yusuke Sugihara; Yoshifumi Fukunishi; Haruki Nakamura
Journal:  Biophysics (Nagoya-shi)       Date:  2013-08-07
  10 in total

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