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; Eva CHOVANCOVÁ and Jiří DAMBORSKÝ

Edition

NUCLEIC ACIDS RESEARCH, 2009, 0305-1048

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Other information

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

References:

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

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Abstract

In the original language

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/.

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)