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Structure-based barcoding of proteins.

ABSTRACT: A reduced representation in the format of a barcode has been developed to provide an overview of the topological nature of a given protein structure from 3D coordinate file. The molecular structure of a protein coordinate file from Protein Data Bank is first expressed in terms of an alpha-numero code and further converted to a barcode image. The barcode representation can be used to compare and contrast different proteins based on their structure. The utility of this method has been exemplified by comparing structural barcodes of proteins that belong to same fold family, and across different folds. In addition to this, we have attempted to provide an illustration to (i) the structural changes often seen in a given protein molecule upon interaction with ligands and (ii) Modifications in overall topology of a given protein during evolution. The program is fully downloadable from the website http://www.iitg.ac.in/probar/.

SUBMITTER: Metri R

PROVIDER: S-EPMC3892305 | biostudies-literature | 2014 Jan

REPOSITORIES: biostudies-literature

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Structure-based barcoding of proteins.

Metri Rahul R Jerath Gaurav G Kailas Govind G Gacche Nitin N Pal Adityabarna A Ramakrishnan Vibin V

Protein science : a publication of the Protein Society 20140101 1

A reduced representation in the format of a barcode has been developed to provide an overview of the topological nature of a given protein structure from 3D coordinate file. The molecular structure of a protein coordinate file from Protein Data Bank is first expressed in terms of an alpha-numero code and further converted to a barcode image. The barcode representation can be used to compare and contrast different proteins based on their structure. The utility of this method has been exemplified ...[more]

PMID: 24170674

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