SCOWLP: a web-based database for detailed characterization and visualization of protein interfaces

BMC Bioinformatics
Joan TeyraM Teresa Pisabarro

Abstract

Currently there is a strong need for methods that help to obtain an accurate description of protein interfaces in order to be able to understand the principles that govern molecular recognition and protein function. Many of the recent efforts to computationally identify and characterize protein networks extract protein interaction information at atomic resolution from the PDB. However, they pay none or little attention to small protein ligands and solvent. They are key components and mediators of protein interactions and fundamental for a complete description of protein interfaces. Interactome profiling requires the development of computational tools to extract and analyze protein-protein, protein-ligand and detailed solvent interaction information from the PDB in an automatic and comparative fashion. Adding this information to the existing one on protein-protein interactions will allow us to better understand protein interaction networks and protein function. SCOWLP (Structural Characterization Of Water, Ligands and Proteins) is a user-friendly and publicly accessible web-based relational database for detailed characterization and visualization of the PDB protein interfaces. The SCOWLP database includes proteins, peptidic-liga...Continue Reading

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Citations

Jan 9, 2013·Journal of Molecular Modeling·Jelena RandjelovićVladimir Savić
May 21, 2011·Journal of Computer-aided Molecular Design·Sergey A SamsonovM Teresa Pisabarro
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Methods Mentioned

BETA
X-ray
NMR

Software Mentioned

MySQL
Jmol scripts
SCOWLP C O
3did
Jmol
PSIMAP
SCOWLP
PRISM
SCOW
InterPare

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