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Showing results for iupred
Your search for kidpred retrieved no results
Prediction of protein disorder based on IUPred.
Dosztányi Z. Dosztányi Z. Protein Sci. 2018 Jan;27(1):331-340. doi: 10.1002/pro.3334. Epub 2017 Nov 16. Protein Sci. 2018. PMID: 29076577 Free PMC article.
Various applications that benefited from IUPred to provide improved disorder predictions, complementing domain annotations and aiding the identification of functional short linear motifs are also described here. IUPred is freely available for noncommercial users thr …
Various applications that benefited from IUPred to provide improved disorder predictions, complementing domain annotations and aiding …
IUPred: web server for the prediction of intrinsically unstructured regions of proteins based on estimated energy content.
Dosztányi Z, Csizmok V, Tompa P, Simon I. Dosztányi Z, et al. Bioinformatics. 2005 Aug 15;21(16):3433-4. doi: 10.1093/bioinformatics/bti541. Epub 2005 Jun 14. Bioinformatics. 2005. PMID: 15955779
Intrinsically unstructured/disordered proteins and domains (IUPs) lack a well-defined three-dimensional structure under native conditions. The IUPred server presents a novel algorithm for predicting such regions from amino acid sequences by estimating their total pairwise …
Intrinsically unstructured/disordered proteins and domains (IUPs) lack a well-defined three-dimensional structure under native conditions. T …
Intrinsic disorder in PRAME and its role in uveal melanoma.
Antonietti M, Gonzalez DJT, Djulbegovic M, Dayhoff GW 2nd, Uversky VN, Shields CL, Karp CL. Antonietti M, et al. Cell Commun Signal. 2023 Aug 25;21(1):222. doi: 10.1186/s12964-023-01197-y. Cell Commun Signal. 2023. PMID: 37626310 Free PMC article.
The Database of Disordered Protein Prediction (D(2)P(2)) platform, IUPred, FuzDrop, fIDPnn, AUCpred, SPOT-Disorder2, and metapredict V2 allowed us to evaluate the potential functional disorder of PRAME. ...PRAME was found to have an average disorder score of 16.49% (i.e., …
The Database of Disordered Protein Prediction (D(2)P(2)) platform, IUPred, FuzDrop, fIDPnn, AUCpred, SPOT-Disorder2, and metapredict …
Analyzing IDPs in Interactomes.
Uversky VN. Uversky VN. Methods Mol Biol. 2020;2141:895-945. doi: 10.1007/978-1-0716-0524-0_46. Methods Mol Biol. 2020. PMID: 32696395
To this end, description is provided for some of the use of UniProt and DisProt databases, several databases generating PPI networks (BioGRID, IntAct, DIP, MINT, HPRD, APID, KEGG, and STRING), Composition profiler, some tools for the per-residue disorder predictions (PONDR() VLXT …
To this end, description is provided for some of the use of UniProt and DisProt databases, several databases generating PPI networks (BioGRI …
The Origin of Discrepancies between Predictions and Annotations in Intrinsically Disordered Proteins.
Pajkos M, Erdős G, Dosztányi Z. Pajkos M, et al. Biomolecules. 2023 Sep 25;13(10):1442. doi: 10.3390/biom13101442. Biomolecules. 2023. PMID: 37892124 Free PMC article.
However, a recent large-scale assessment of the performance of these methods indicated that there is still room for further improvements, necessitating novel approaches to understand the strengths and weaknesses of individual methods. In this study, we compared two methods, IU
However, a recent large-scale assessment of the performance of these methods indicated that there is still room for further improvements, ne …
Intrinsic disorder may drive the interaction of PROS1 and MERTK in uveal melanoma.
Djulbegovic M, Taylor Gonzalez DJ, Antonietti M, Uversky VN, Shields CL, Karp CL. Djulbegovic M, et al. Int J Biol Macromol. 2023 Oct 1;250:126027. doi: 10.1016/j.ijbiomac.2023.126027. Epub 2023 Jul 26. Int J Biol Macromol. 2023. PMID: 37506796
PROS1 was significantly enriched in cysteine, the most order-promoting residue (p-value <0.05). Our IUPred analysis demonstrated that there are two disorder-to-order transition (DOT) regions in PROS1. ...
PROS1 was significantly enriched in cysteine, the most order-promoting residue (p-value <0.05). Our IUPred analysis demonstrated t …
MobiDB 2.0: an improved database of intrinsically disordered and mobile proteins.
Potenza E, Di Domenico T, Walsh I, Tosatto SC. Potenza E, et al. Nucleic Acids Res. 2015 Jan;43(Database issue):D315-20. doi: 10.1093/nar/gku982. Epub 2014 Oct 31. Nucleic Acids Res. 2015. PMID: 25361972 Free PMC article.
The 10 predictors currently included (three ESpritz flavors, two IUPred flavors, two DisEMBL flavors, GlobPlot, VSL2b and JRONN) enable MobiDB to provide disorder annotations for every protein in absence of more reliable data. ...
The 10 predictors currently included (three ESpritz flavors, two IUPred flavors, two DisEMBL flavors, GlobPlot, VSL2b and JRONN) enab …
MedProDB: A database of Mediator proteins.
Bhardwaj R, Thakur JK, Kumar S. Bhardwaj R, et al. Comput Struct Biotechnol J. 2021 Jul 27;19:4165-4176. doi: 10.1016/j.csbj.2021.07.031. eCollection 2021. Comput Struct Biotechnol J. 2021. PMID: 34527190 Free PMC article.
Furthermore, different types of search and browse options with four different tools namely BLAST, Smith-Waterman Align, IUPred, and MoRF-Chibi_Light are provided at MedProDB to perform different types of analysis. ...
Furthermore, different types of search and browse options with four different tools namely BLAST, Smith-Waterman Align, IUPred, and M …
Thermo-resistant intrinsically disordered proteins are efficient 20S proteasome substrates.
Tsvetkov P, Myers N, Moscovitz O, Sharon M, Prilusky J, Shaul Y. Tsvetkov P, et al. Mol Biosyst. 2012 Jan;8(1):368-73. doi: 10.1039/c1mb05283g. Epub 2011 Oct 25. Mol Biosyst. 2012. PMID: 22027891
The data obtained from these two assays do not fully overlap but in combination provide a more reliable experimental IDP definition. The correlation was more significant when the IUPred was used as the IDPs predicting software. We demonstrate in this work a simple experime …
The data obtained from these two assays do not fully overlap but in combination provide a more reliable experimental IDP definition. The cor …
IUPred3: prediction of protein disorder enhanced with unambiguous experimental annotation and visualization of evolutionary conservation.
Erdős G, Pajkos M, Dosztányi Z. Erdős G, et al. Nucleic Acids Res. 2021 Jul 2;49(W1):W297-W303. doi: 10.1093/nar/gkab408. Nucleic Acids Res. 2021. PMID: 34048569 Free PMC article.
Computational methods play important roles in the characterization of IDRs. One of the commonly used disorder prediction methods is IUPred, which relies on an energy estimation approach. The IUPred web server takes an amino acid sequence or a Uniprot ID/accession as …
Computational methods play important roles in the characterization of IDRs. One of the commonly used disorder prediction methods is IUPre
46 results