95
edits
Mssb18/ProtDesign: Difference between revisions
From OpenWetWare
Jump to navigationJump to search
→Enzyme Design
(Created page with "= Computational Enzyme Design: A Practical Exercise = Pablo Carbonell, [http://synbiochem.co.uk/ SYNBIOCHEM Centre], Manchester Institute of Biotechnology, University of Manc...") |
|||
| Line 235: | Line 235: | ||
'''Study 6'''. Combinatorial library of a ranked ensemble of variants. | '''Study 6'''. Combinatorial library of a ranked ensemble of variants. | ||
# Use the [[http://rosettadesign.med.unc.edu/ RosettaDesign]] webserver in order to perform a //saturation mutagenesis// focused library for the hot-spots positions. | # Use the [[http://funclib.weizmann.ac.il/ FuncLib]] webserver to design multiple mutants in enzyme active sites. | ||
# Alternatively, use the [[http://rosettadesign.med.unc.edu/ RosettaDesign]] webserver in order to perform a //saturation mutagenesis// focused library for the hot-spots positions. | |||
# List the best predicted substitutions for the hot-spots. | # List the best predicted substitutions for the hot-spots. | ||
# Sketch an in-silico protocol for building a combinatorial library including simultaneous mutations of the hot-spots. | # Sketch an in-silico protocol for building a combinatorial library including simultaneous mutations of the hot-spots. | ||
| Line 244: | Line 245: | ||
=== Webserver interface === | === Webserver interface === | ||
* [http://funclib.weizmann.ac.il/ FuncLib]: an online method that designs a set of diverse multipoint or multiple mutants in enzyme active sites. | |||
* [http://rosettadesign.med.unc.edu/ RosettaDesign]: Rosetta design can be used to identify sequences compatible with a given protein backbone. Some of Rosetta design's successes include the design of a novel protein fold, redesign of an existing protein for greater stability, increased binding affinity between two proteins, and the design of novel enzymes. | * [http://rosettadesign.med.unc.edu/ RosettaDesign]: Rosetta design can be used to identify sequences compatible with a given protein backbone. Some of Rosetta design's successes include the design of a novel protein fold, redesign of an existing protein for greater stability, increased binding affinity between two proteins, and the design of novel enzymes. | ||
* [http://rosie.rosettacommons.org/ Rosie]: Rosetta Online Server that Includes Everyone. | * [http://rosie.rosettacommons.org/ Rosie]: Rosetta Online Server that Includes Everyone. | ||
