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Life Isn't 2-D, So Why Should Our Encyclopedias Be?

Date:
August 25, 2008
Source:
BioMed Central
Summary:
Biologists and biochemists are now able to access 3-D images of biomacromolecules underlying biological functions and disease. Rather than relying on text to provide the understanding of biomacromolecule structures, a collaborative Web site called Proteopedia now provides a new resource by linking written information and three-dimensional structural information. The wiki web resource, first described in BioMed Central's open access journal Genome Biology, displays protein structures and other biomacromolecules in interactive format.

A 2-D screen capture of a 3-D image of the Hemoglobin protein molecule.
Credit: Image courtesy of Proteopedia

Biologists and biochemists are now able to access 3D images of biomacromolecules underlying biological functions and disease. Rather than relying on text to provide the understanding of biomacromolecule structures, a collaborative website called Proteopedia now provides a new resource by linking written information and three-dimensional structural information.

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The wiki web resource displays protein structures and other biomacromolecules in interactive format. These interactive images are surrounded by descriptive text containing hyperlinks that change the appearance (such as view, representations, colors or labels) of the adjacent 3D structure to reflect the concept explained in the text. This makes the complex structural information readily accessible and comprehensible, even to people who are not structural biologists.

The resource was developed at the Weizmann Institute of Science in Israel by Jaime Prilusky, Eran Hodis, and Joel L. Sussman, together with colleagues at the Weizmann Institute and in the USA. According to Sussman, "Using Proteopedia, anyone can easily create descriptions of biomacromolecules linked to their 3D structure."

Aside from content added by Proteopedia's existing users, pages on each of the more than 50,000 entries in the Protein Data Bank have been automatically created with 'seed' information, creating pages that are already useful and primed for expansion by users. Members of the scientific community are invited to request a user account to edit existing pages and to create new ones.

Hodis says, "We are presenting Proteopedia to the scientific community to judge its usefulness and merit, and we truly hope that it will offer an effective and appealing way to convey the link between 3D structure and function."

On the web: Proteopedia (http://www.proteopedia.org)


Story Source:

The above story is based on materials provided by BioMed Central. Note: Materials may be edited for content and length.


Journal Reference:

  1. Hodis E, Prilusky J, Martz E, Silman I, Moult J, Sussman JL. Proteopedia. Genome Biology, (3 August 2008) DOI: 10.1186/gb-2008-9-8-r121

Cite This Page:

BioMed Central. "Life Isn't 2-D, So Why Should Our Encyclopedias Be?." ScienceDaily. ScienceDaily, 25 August 2008. <www.sciencedaily.com/releases/2008/08/080822120146.htm>.
BioMed Central. (2008, August 25). Life Isn't 2-D, So Why Should Our Encyclopedias Be?. ScienceDaily. Retrieved December 18, 2014 from www.sciencedaily.com/releases/2008/08/080822120146.htm
BioMed Central. "Life Isn't 2-D, So Why Should Our Encyclopedias Be?." ScienceDaily. www.sciencedaily.com/releases/2008/08/080822120146.htm (accessed December 18, 2014).

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