FoldX 3.0 – Force Field for Energy Calculations and Protein Design

FoldX 3.0

:: DESCRIPTION

FoldX conduct rapid evaluation of the effect of mutations on the stability, folding and dynamics of proteins and nucleic acids.

The FoldX/Yasara ( FoldX plugin for YASARA) is a software package to access and run FoldX commands in YASARA.

::DEVELOPER

Serrano’s laboratory

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux

:: DOWNLOAD

:: MORE INFORMATION

Citation

The FoldX web server: an online force field.
Schymkowitz J, Borg J, Stricher F, Nys R, Rousseau F, Serrano L.
Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W382-8.

dDFIRE 1.1 / DFIRE 2 – Monomer Protein Energy Calculation

dDFIRE 1.1 / DFIRE 2

:: DESCRIPTION

dDFIRE and DFIRE (distance-scaled, finite, ideal-gas reference state) is a method for monomer protein energy calculation

::DEVELOPER

Laboratory of Structural Bioinformatics and Design

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux

:: DOWNLOAD

:: MORE INFORMATION

Citation

Yuedong Yang, Yaoqi Zhou.
Specific interactions for ab initio folding of protein terminal regions with secondary structures.
Proteins,72(2):793-803(2008).

Yuedong Yang, Yaoqi Zhou.
Ab initio folding of terminal segments with secondary structures reveals the fine difference between two closely related all-atom statistical energy functions.
Protein Science,17:1212-1219(2008).