Anticipating protein evolution with successor sequence predictor

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216305%3A26230%2F26%3A0197679" target="_blank" >RIV/00216305:26230/26:0197679 - isvavai.cz</a>

Výsledek na webu

<a href="https://pmc.ncbi.nlm.nih.gov/articles/PMC11927200/" target="_blank" >https://pmc.ncbi.nlm.nih.gov/articles/PMC11927200/</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1186/s13321-025-00971-z" target="_blank" >10.1186/s13321-025-00971-z</a>

Jazyk výsledku

angličtina

Název v původním jazyce

Anticipating protein evolution with successor sequence predictor

Popis výsledku v původním jazyce

The quest to predict and understand protein evolution has been hindered by limitations on both the theoretical and the experimental fronts. Most existing theoretical models of evolution are descriptive, rather than predictive, leaving the fnal modifcations in the hands of researchers. Existing experimental techniques to help probe the evolutionary sequence space of proteins, such as directed evolution, are resource-intensive and require specialised skills. We present the successor sequence predictor (SSP) as an innovative solution. Successor sequence predictor is an in silico protein design method that mimics laboratory-based protein evolution by reconstructing a protein's evolutionary history and suggesting future amino acid substitutions based on trends observed in that history through carefully selected physicochemical descriptors. This approach enhances specialised proteins by predicting mutations that improve desired properties, such as thermostability, activity, and solubility. Successor Sequence Predictor can thus be used as a general protein engineering tool to develop practically useful proteins. The code of the Successor Sequence Predictor is provided at https://github.com/loschmidt/successor-sequence-predictor, and the design of mutations will be also possible via an easy-to-use web server https://loschmidt.chemi.muni.cz/freprotasr/.

Název v anglickém jazyce

Anticipating protein evolution with successor sequence predictor

Popis výsledku anglicky

The quest to predict and understand protein evolution has been hindered by limitations on both the theoretical and the experimental fronts. Most existing theoretical models of evolution are descriptive, rather than predictive, leaving the fnal modifcations in the hands of researchers. Existing experimental techniques to help probe the evolutionary sequence space of proteins, such as directed evolution, are resource-intensive and require specialised skills. We present the successor sequence predictor (SSP) as an innovative solution. Successor sequence predictor is an in silico protein design method that mimics laboratory-based protein evolution by reconstructing a protein's evolutionary history and suggesting future amino acid substitutions based on trends observed in that history through carefully selected physicochemical descriptors. This approach enhances specialised proteins by predicting mutations that improve desired properties, such as thermostability, activity, and solubility. Successor Sequence Predictor can thus be used as a general protein engineering tool to develop practically useful proteins. The code of the Successor Sequence Predictor is provided at https://github.com/loschmidt/successor-sequence-predictor, and the design of mutations will be also possible via an easy-to-use web server https://loschmidt.chemi.muni.cz/freprotasr/.

Druh

J_imp - Článek v periodiku v databázi Web of Science

CEP obor

—

OECD FORD obor

10201 - Computer sciences, information science, bioinformathics (hardware development to be 2.2, social aspect to be 5.8)

Projekt

—

Návaznosti

S - Specificky vyzkum na vysokych skolach

Rok uplatnění

2025

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název periodika

Journal of Cheminformatics

ISSN

—

e-ISSN

1758-2946

Svazek periodika

17

Číslo periodika v rámci svazku

34

Stát vydavatele periodika

GB - Spojené království Velké Británie a Severního Irska

Počet stran výsledku

12

Strana od-do

1-12

Kód UT WoS článku

001467954700002

EID výsledku v databázi Scopus

2-s2.0-105000891864