The DOI matches its Crossref record; 6 of the 6 references it cites were found in a registry or an index.
Analyzing Protein Disorder with IUPred2A
Open accessAbstract
IUPred2A is a combined prediction tool designed to discover intrinsically disordered or conditionally disordered proteins and protein regions. Intrinsically disordered regions exist without a well‐defined three‐dimensional structure in isolation but carry out important biological functions. Over the years, various prediction methods have been developed to characterize disordered regions. The existence of disordered segments can also be dependent on different factors such as binding partners or environmental traits like pH or redox potential, and recognizing such regions represents additional computational challenges. In this article, we present detailed instructions on how to use IUPred2A, one of the most widely used tools for the prediction of disordered regions/proteins or conditionally disordered segments, and provide examples of how the predictions can be interpreted in different contexts. © 2020 The Authors. Basic Protocol 1: Analyzing disorder propensity with IUPred2A online Basic Protocol 2: Analyzing disordered binding regions using ANCHOR2 Support Protocol 1: Interpretation of the results Basic Protocol 3: Analyzing redox‐sensitive disordered regions Support Protocol 2: Download options Support Protocol 3: REST API for programmatic purposes Basic Protocol 4: Using IUPred2A locally
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Cites
UniProt: a worldwide hub of protein knowledge
The UniProt Consortium (2019) · Nucleic Acids Research · doi:10.1093/nar/gky1049 · Cited by 7,698
The Pfam protein families database in 2019
El-Gebali, S., Mistry, J., Bateman, A., Eddy, S. R., Luciani, A., Potter, S. C., Qureshi, M., Richardson, L. J., Salazar, G. A., Smart, A., et al. (2019) · Nucleic Acids Research · doi:10.1093/nar/gky995 · Cited by 4,602
Extreme disorder in an ultrahigh-affinity protein complex
Borgia, A., Borgia, M. B., Bugge, K., Kissling, V. M., Heidarsson, P. O., Fernandes, C. B., Sottini, A., Soranno, A., Buholzer, K. J., Nettels, D., et al. (2018) · Nature · doi:10.1038/nature25762 · Cited by 653
Specificity of Linear Motifs That Bind to a Common Mitogen-Activated Protein Kinase Docking Groove
Garai, Á., Zeke, A., Gógl, G., Törő, I., Fördős, F., Blankenburg, H., Bárkai, T., Varga, J., Alexa, A., Emig, D., et al. (2012) · Science Signaling · doi:10.1126/scisignal.2003004 · Cited by 177 · cited 1×
“This region corresponds to experimentally verified MAPK docking motifs, as shown in the figure with purple boxes in the ELM line (Bardwell & Bardwell, 2015; Garai et al., 2012; Ho, Bardwell, Abdollahi, & Bardwell, 2003).”
Miskei, M., Antal, C., & Fuxreiter, M. (2017) · Nucleic Acids Research · doi:10.1093/nar/gkw1019 · Cited by 119
Ho, D. T., Bardwell, A. J., Abdollahi, M., & Bardwell, L. (2003) · Journal of Biological Chemistry · doi:10.1074/jbc.m304229200 · Cited by 108
Cited by
Gutierrez‐Beltran, E., Elander, P. H., Dalman, K., Dayhoff, G. W., Moschou, P. N., Uversky, V. N., Crespo, J. L., & Bozhkov, P. V. (2021) · The EMBO Journal · doi:10.15252/embj.2020105043 · Cited by 83
Regulatory sites in the Mon1–Ccz1 complex control Rab5 to Rab7 transition and endosome maturation
Borchers, A.-C., Janz, M., Schäfer, J.-H., Moeller, A., Kümmel, D., Paululat, A., Ungermann, C., & Langemeyer, L. (2023) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2303750120 · Cited by 43
A cyclin-dependent kinase-mediated phosphorylation switch of disordered protein condensation
Valverde, J. M., Dubra, G., Phillips, M., Haider, A., Elena-Real, C., Fournet, A., Alghoul, E., Chahar, D., Andrés-Sanchez, N., Paloni, M., et al. (2023) · Nature Communications · doi:10.1038/s41467-023-42049-0 · Cited by 33
Maneix, L., Iakova, P., Lee, C. G., Moree, S. E., Lu, X., Datar, G. K., Hill, C. T., Spooner, E., King, J. C. K., Sykes, D. B., et al. (2024) · Nature Cell Biology · doi:10.1038/s41556-024-01387-x · Cited by 28
Metadata
- Authors
- Erdős, G., & Dosztányi, Z.
- Venue
- Current Protocols in Bioinformatics
- Publisher
- Wiley
- Published
- 2020-04
- Volume
- 70
- Issue
- 1
- Pages
- e99-e99
- ISSN
- 1934-3396 (ISSN-L)
- 1934-340X
- OpenAlex
- W3014133106
- Cited by
- 335
- References
- 6
- FWCI
- 14.66
- Type
- journal article
- Language
- en
- Open access
- hybrid
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