AlphaFind: Discover structure similarity across the entire known proteome
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14330%2F24%3A00135535" target="_blank" >RIV/00216224:14330/24:00135535 - isvavai.cz</a>
Result on the web
<a href="https://www.biorxiv.org/content/10.1101/2024.02.15.580465v1" target="_blank" >https://www.biorxiv.org/content/10.1101/2024.02.15.580465v1</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1101/2024.02.15.580465" target="_blank" >10.1101/2024.02.15.580465</a>
Alternative languages
Result language
angličtina
Original language name
AlphaFind: Discover structure similarity across the entire known proteome
Original language description
AlphaFind is a web-based search engine that provides fast structure-based retrieval in the entire set of AlphaFold DB structures. Unlike other protein processing tools, AlphaFind is focused entirely on tertiary structure, automatically extracting the main 3D features of each protein chain and using a machine learning model to find the most similar structures. This indexing approach and the 3D feature extraction method used by AlphaFind have both demonstrated remarkable scalability to large datasets as well as to large protein structures. The web application itself has been designed with a focus on clarity and ease of use. The searcher accepts any valid Uniprot ID, PDB ID or gene symbol as input, and returns a set of similar protein chains from AlphaFold DB, including various similarity metrics between the query and each of the retrieved results. In addition to the main search functionality, the application provides 3D visualizations of protein structure superpositions in order to allow researchers to instantly analyze the structural similarity of the retrieved results. The AlphaFind web application is available online for free and without any registration at https://alphafind.fi.muni.cz.
Czech name
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Czech description
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Classification
Type
V<sub>souhrn</sub> - Summary research report
CEP classification
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OECD FORD branch
10200 - Computer and information sciences
Result continuities
Project
Result was created during the realization of more than one project. More information in the Projects tab.
Continuities
P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)<br>S - Specificky vyzkum na vysokych skolach
Others
Publication year
2024
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Number of pages
6
Place of publication
Cold Spring Harbor, USA
Publisher/client name
bioRxiv
Version
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