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Shape Signatures database

eagle-i ID

http://eagle-i.itmat.upenn.edu/i/0000013d-4aed-4892-ae62-bb6880000000

Resource Type

  1. Database

Properties

  1. Resource Description
    The Shape Signatures database allows an investigator to identify molecules in the ZINC database of available compounds that are shape-similar to a molecule used as a query. Shape signatures is a novel technique for computer-aided drug design developed over the last few years by USP associate professor of biochemistry Randy Zauhar and collaborators. It is a system for compactly representing the shape of drug molecules and the protein receptor sites they target. It was recognized by Emil Fischer in the nineteenth century that the molecules central to the processes of life must recognize each other by a mechanism similar to a key fitting into a lock, and we now recognize that his “lock and key hypothesis” is as central to understanding the mechanics of life as Darwin’s ideas are to understanding evolution and development. The central idea is complementarity, that bioactive molecules (including metabolites, hormones, and drugs) fit into protein receptors that provide a pocket of the right size and shape to accommodate the small molecule, much like a three-dimensional puzzle. This suggests two routes to identifying new drugs—find molecules similar in shape to a known active or complementary in shape to a known receptor. The shape signatures approach works with either of the two routes just mentioned. The method uses a technique much like ray-tracing to explore the shape of a drug molecule or, alternatively, the shape of a protein receptor pocket. Compact descriptors of shape are generated from the ray-trace, and they can be easily and quickly compared, leading to the capability of rapidly scanning very large chemical libraries for candidate drug molecules.
  2. Contact
    Zauhar, Randy J., M.S., Ph.D.
  3. Used by
    West Center for Computational Chemistry and Drug Design (USciences)
  4. Related Publication or Documentation
    Shape signatures: a new approach to computer-aided ligand- and receptor-based drug design.
  5. Related Publication or Documentation
    Application of screening methods, shape signatures and engineered biosensors in early drug discovery process
  6. Website(s)
    http://www.artemisdiscovery.com/
  7. Related Technique
    Computational modeling technique
  8. Related Technique
    Compound library screening
  9. Related Technique
    Small molecule screening
  10. Developed by
    Zauhar, Randy J., M.S., Ph.D.
 
RDFRDF
 
Provenance Metadata About This Resource Record
  1. workflow state
    Published
  2. contributor
    fcoldren
  3. created
    2013-03-08T12:42:17.445-05:00
  4. creator
    fcoldren
  5. modified
    2013-07-22T10:51:56.342-04:00

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The eagle-i Consortium is supported by NIH Grant #5U24RR029825-02 / Copyright 2016