CoLiDe: Combinatorial Library Design tool for probing protein sequence space
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F61388963%3A_____%2F21%3A00542938" target="_blank" >RIV/61388963:_____/21:00542938 - isvavai.cz</a>
Alternative codes found
RIV/68407700:21230/21:00350719 RIV/00216208:11310/21:10428526
Result on the web
<a href="https://doi.org/10.1093/bioinformatics/btaa804" target="_blank" >https://doi.org/10.1093/bioinformatics/btaa804</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1093/bioinformatics/btaa804" target="_blank" >10.1093/bioinformatics/btaa804</a>
Alternative languages
Result language
angličtina
Original language name
CoLiDe: Combinatorial Library Design tool for probing protein sequence space
Original language description
MOTIVATION: Current techniques of protein engineering focus mostly on re-designing small targeted regions or defined structural scaffolds rather than constructing combinatorial libraries of versatile compositions and lengths. This is a missed opportunity because combinatorial libraries are emerging as a vital source of novel functional proteins and are of interest in diverse research areas. RESULTS: Here, we present a computational tool for Combinatorial Library Design (CoLiDe) offering precise control over protein sequence composition, length and diversity. The algorithm uses evolutionary approach to provide solutions to combinatorial libraries of degenerate DNA templates. We demonstrate its performance and precision using four different input alphabet distribution on different sequence lengths. In addition, a model design and experimental pipeline for protein library expression and purification is presented, providing a proof-of-concept that our protocol can be used to prepare purified protein library samples of up to 1011-1012 unique sequences. CoLiDe presents a composition-centric approach to protein design towards different functional phenomena.
Czech name
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Czech description
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Classification
Type
J<sub>imp</sub> - Article in a specialist periodical, which is included in the Web of Science database
CEP classification
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OECD FORD branch
10608 - Biochemistry and molecular biology
Result continuities
Project
<a href="/en/project/LQ1604" target="_blank" >LQ1604: BIOCEV: from Fundamental to Applied Research</a><br>
Continuities
I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace
Others
Publication year
2021
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Name of the periodical
Bioinformatics
ISSN
1367-4803
e-ISSN
1460-2059
Volume of the periodical
37
Issue of the periodical within the volume
4
Country of publishing house
GB - UNITED KINGDOM
Number of pages
8
Pages from-to
482-489
UT code for WoS article
000652090200006
EID of the result in the Scopus database
2-s2.0-85106068552