HotSpot Wizard: a Web Server for Identification of Hot Spots in Protein Engineering.

PAVELKA, Antonín, Eva CHOVANCOVÁ and Jiří DAMBORSKÝ. HotSpot Wizard: a Web Server for Identification of Hot Spots in Protein Engineering. NUCLEIC ACIDS RESEARCH. 2009, vol. 2009, No 37, p. 376-383. ISSN 0305-1048.

Basic information

• Original name: HotSpot Wizard: a Web Server for Identification of Hot Spots in Protein Engineering.
• Name in Czech: HotSpot Wizard: Webový server pro identifikaci "horkých bodů" v proteinovém inženýrství.
• Authors: PAVELKA, Antonín (203 Czech Republic), Eva CHOVANCOVÁ (203 Czech Republic) and Jiří DAMBORSKÝ (203 Czech Republic, guarantor).
• Edition: NUCLEIC ACIDS RESEARCH, 2009, 0305-1048.

Other information

• Original language: English
• Type of outcome: Article in a journal
• Field of Study: 10201 Computer sciences, information science, bioinformatics
• Country of publisher: United States of America
• Confidentiality degree: is not subject to a state or trade secret
• WWW: URL
• Impact factor: Impact factor: 7.479
• RIV identification code: RIV/00216224:14310/09:00028562
• Organization unit: Faculty of Science
• UT WoS: 000267889100066
• Keywords in English: HotSpot Wizard; hot spots; engineering of substrate specificity; activity or enantioselectivity of enzymes
• Tags: International impact, Reviewed

Abstract

HotSpot Wizard is a web server for automatic identification of "hot spots" for engineering of substrate specificity, activity or enantioselectivity of enzymes and for annotation of protein structures. The web server implements the protein engineering protocol, which targets evolutionarily variable amino acid positions located in the active site or lining the access tunnels. The "hot spots" for mutagenesis are selected through the integration of structural, functional and evolutionary information obtained from: (i) the databases RCSB PDB, UniProt, PDBSWS, Catalytic Site Atlas and nr NCBI and (ii) the tools CASTp, CAVER, BLAST, CD-HIT, MUSCLE and Rate4Site. The protein structure and e-mail address are the only obligatory inputs for the calculation. In the output, HotSpot Wizard lists annotated residues ordered by estimated mutability. The results of the analysis are mapped on the enzyme structure and visualized in the web browser using Jmol. The HotSpot Wizard server should be useful for protein engineers interested in exploring the structure of their favourite protein and for the design of mutations in site-directed mutagenesis and focused directed evolution experiments. HotSpot Wizard is available at http://loschmidt.chemi.muni.cz/hotspotwizard/.

Abstract (in Czech)

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Links

• GA201/07/0927, research and development project: Name: Vizualizace proteinových struktur

Investor: Czech Science Foundation, Visualization of protein structures

• IAA401630901, research and development project: Name: Evoluce substrátové specifity u enzymů aktivních s xenobiotickými látkami

Investor: Academy of Sciences of the Czech Republic, Evolution of substrate specificity in enzymes acting on xenobiotic compounds

• LC06010, research and development project: Name: Centrum biokatalýzy a biotransformací

Investor: Ministry of Education, Youth and Sports of the CR, Center of Biocatalysis and Biotransformation

• MSM0021622412, plan (intention): Name: Interakce mezi chemickými látkami, prostředím a biologickými systémy a jejich důsledky na globální, regionální a lokální úrovni (INCHEMBIOL) (Acronym: INCHEMBIOL)

Investor: Ministry of Education, Youth and Sports of the CR, Interactions among the chemicals, environment and biological systems and their consequences on the global, regional and local scales (INCHEMBIOL)