Abstract

Prism (http://gordion.hpc.eng.ku.edu.tr/prism) is a website for protein interface analysis and prediction of putative protein-protein interactions. It is composed of a database holding protein interface structures derived from the Protein Data Bank (PDB). The server also includes summary information about related proteins and an interactive protein interface viewer. A list of putative protein-protein interactions obtained by running our prediction algorithm can also be accessed. These results are applied to a set of protein structures obtained from the PDB at the time of algorithm execution (January 2004). Users can browse through the non-redundant dataset of representative interfaces on which the prediction algorithm depends, retrieve the list of similar structures to these interfaces or see the results of interaction predictions for a particular protein. Another service provided is interactive prediction. This is done by running the algorithm for user input structures.

Keywords

Protein Data Bank (RCSB PDB)Protein Data BankInterface (matter)PrismMatching (statistics)Set (abstract data type)BiologyProtein structureComputer scienceProtein–protein interactionUser interfaceData setArtificial intelligenceGeneticsProgramming languageOperating system

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Publication Info

Year
2005
Type
article
Volume
33
Issue
Web Server
Pages
W331-W336
Citations
212
Access
Closed

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Cite This

Utkan Ogmen, Özlem Keskin, Ali Selim Aytuna et al. (2005). PRISM: protein interactions by structural matching. Nucleic Acids Research , 33 (Web Server) , W331-W336. https://doi.org/10.1093/nar/gki585

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DOI
10.1093/nar/gki585