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Recipe: Mutate No Wiggle 2.1
Created by LociOiling 3 1
Your rating: None Average: 5 (2 votes)


Name: Mutate No Wiggle 2.1
ID: 102469
Created on: Mon, 09/04/2017 - 16:44
Updated on: Mon, 09/04/2017 - 23:44

Brute Force Mutator, but doesn't wiggle, stabilize, or fuze. Keeps best AA for each spot. Good for slow design puzzles. Has options for restricting mutations. Version 1.2 lets you exclude alanine. Version 1.3 works on locked segments and lets you repeat a specified number of times. Version 1.4 shuffles the order of segments after the first round. The first round is in segment score order. Version 1.5 sets an adjustable minimum gain threshold to avoid wasting time on miniscule gains. Version 1.6 offers a "polars only" option and streamlines reporting. V 1.7 adds tyrosine ('Y') to the polar list. Version 2.0 revamps the pause function. Version 2.1 adds enforcement of recent design puzzle rules and improves printing of options.

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LociOiling's picture
User offline. Last seen 2 hours 44 min ago. Offline
Joined: 12/27/2012
enforces design rules

A year in the making, version 2.1 adds a checkbox to enforce the current design rules:

+ No CYS residues anywhere
+ No GLY, ALA residues in sheets
+ No GLY, ALA, SER, THR in helices

These changes probably speed things up a little, but the filters are probably enough to handle it.

When you select the "enforce design rules" options, you don't have to use any of the other AA settings. You'll see a list of 20 "selected" amino acids, but these will be filtered as needed.

MNW has always allowed mutating only selected areas. Either select or freeze the areas to be mutated. Start MNW and click the "Select" button on the first dialog. The next dialog lets you pick selected or frozen areas. The results are then shown in the "Range" box on the main dialog. You can also specify segment ranges and individual segments directly in "Range", for example "57-63 81 85" to mutate segments 57-63 plus 81 and 85.

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Developed by: UW Center for Game Science, UW Institute for Protein Design, Northeastern University, Vanderbilt University Meiler Lab, UC Davis
Supported by: DARPA, NSF, NIH, HHMI, Amazon, Microsoft, Adobe, Boehringer Ingelheim, RosettaCommons