PrankWeb 3: accelerated ligand-binding site predictions for experimental and modelled protein structures
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216208%3A11320%2F22%3A10448337" target="_blank" >RIV/00216208:11320/22:10448337 - isvavai.cz</a>
Alternative codes found
RIV/00216208:11310/22:10448337
Result on the web
<a href="https://verso.is.cuni.cz/pub/verso.fpl?fname=obd_publikace_handle&handle=GjZinv2CUe" target="_blank" >https://verso.is.cuni.cz/pub/verso.fpl?fname=obd_publikace_handle&handle=GjZinv2CUe</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1093/nar/gkac389" target="_blank" >10.1093/nar/gkac389</a>
Alternative languages
Result language
angličtina
Original language name
PrankWeb 3: accelerated ligand-binding site predictions for experimental and modelled protein structures
Original language description
Knowledge of protein-ligand binding sites (LBSs) enables research ranging from protein function annotation to structure-based drug design. To this end, we have previously developed a stand-alone tool, P2Rank, and the web server PrankWeb (https://prankweb.cz/) for fast and accurate LBS prediction. Here, we present significant enhancements to PrankWeb. First, a new, more accurate evolutionary conservation estimation pipeline based on the UniRef50 sequence database and the HMMER3 package is introduced. Second, PrankWeb now allows users to enter UniProt ID to carry out LBS predictions in situations where no experimental structure is available by utilizing the AlphaFold model database. Additionally, a range of minor improvements has been implemented. These include the ability to deploy PrankWeb and P2Rank as Docker containers, support for the mmCIF file format, improved public REST API access, or the ability to batch download the LBS predictions for the whole PDB archive and parts of the AlphaFold database.
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
10600 - Biological sciences
Result continuities
Project
<a href="/en/project/LM2018131" target="_blank" >LM2018131: Czech National Infrastructure for Biological Data</a><br>
Continuities
P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)<br>S - Specificky vyzkum na vysokych skolach<br>I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace
Others
Publication year
2022
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Name of the periodical
Nucleic Acids Research [online]
ISSN
1362-4962
e-ISSN
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Volume of the periodical
50
Issue of the periodical within the volume
W1
Country of publishing house
TR - TURKEY
Number of pages
4
Pages from-to
"W593"-"W597"
UT code for WoS article
000801055700001
EID of the result in the Scopus database
2-s2.0-85134384360