MobiDB
Names
More detailed information about this field from each metasource.
MobiDB
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:17.118832
mobidb
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:17.118832
Names
More detailed information about this field from each metasource.
MobiDB
metasource: Fairsharing.orgversion: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:17.118832
mobidb
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:26:17.118832
Names
More detailed information about this field from each metasource.
MobiDB
metasource: Fairsharing.orgversion: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:17.118832
mobidb
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:26:17.118832
MobiDB is a database of intrinsically disordered regions (IDRs) and related features from various sources and prediction tools. Different levels of reliability and different features are reported as different and independent annotations. The database features three levels of annotation: manually curated, indirect and predicted. MobiDB annotates the binding modes of disordered proteins, whether they undergo disorder-to-order transitions or remain disordered in the bound state. In addition, disordered regions undergoing liquid-liquid phase separation or post-translational modifications are defined.
Description
More detailed information about this field from each metasource.
MobiDB is a database of intrinsically disordered regions (IDRs) and related features from various sources and prediction tools. Different levels of reliability and different features are reported as different and independent annotations. The database features three levels of annotation: manually curated, indirect and predicted. MobiDB annotates the binding modes of disordered proteins, whether they undergo disorder-to-order transitions or remain disordered in the bound state. In addition, disordered regions undergoing liquid-liquid phase separation or post-translational modifications are defined.
metasource: Fairsharing.orgversion: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
The MobiDB database (URL: https://mobidb.org/) provides predictions and annotations for intrinsically disordered proteins. Here, we report recent developments implemented in MobiDB version 4, regarding the database format, with novel types of annotations and an improved update process. The new website includes a re-designed user interface, a more effective search engine and advanced API for programmatic access. The new database schema gives more flexibility for the users, as well as simplifying the maintenance and updates. In addition, the new entry page provides more visualisation tools including customizable feature viewer and graphs of the residue contact maps. MobiDB v4 annotates the binding modes of disordered proteins, whether they undergo disorder-to-order transitions or remain disordered in the bound state. In addition, disordered regions undergoing liquid-liquid phase separation or post-translational modifications are defined. The integrated information is presented in a simplified interface, which enables faster searches and allows large customized datasets to be downloaded in TSV, Fasta or JSON formats. An alternative advanced interface allows users to drill deeper into features of interest. A new statistics page provides information at database and proteome levels. The new MobiDB version presents state-of-the-art knowledge on disordered proteins and improves data accessibility for both computational and experimental users.
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
Database of protein disorder and mobility annotations.
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:26:17.118832
Webpage:
https://mobidb.bio.unipd.itWebpage
More detailed information about this field from each metasource.
https://mobidb.bio.unipd.it
metasource: Fairsharing.orgversion: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
https://mobidb.org
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
https://mobidb.org/
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:26:17.118832
Licence:
Name: Creative Commons Attribution 4.0 International (CC BY 4.0)Licence name
More detailed information about this field from each metasource.
Creative Commons Attribution 4.0 International (CC BY 4.0)
metasource: Fairsharing.orgversion: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
CC-BY-4.0
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:26:17.118832
Licence URL
More detailed information about this field from each metasource.
https://creativecommons.org/licenses/by/4.0/
metasource: Fairsharing.orgversion: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
Publications:
Publications
More detailed information about this field from each metasource.
MobiDB 3.0: more annotations for intrinsic disorder, conformational diversity and interactions in proteins
PMID: 29136219
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:17.118832
MobiDB 2.0: an improved database of intrinsically disordered and mobile proteins
PMID: 25361972
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:17.118832
MobiDB: a comprehensive database of intrinsic protein disorder annotations
PMID: 22661649
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:17.118832
MobiDB: intrinsically disordered proteins in 2021
PMID: 33237329
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:17.118832
https://doi.org/10.1093/nar/gkaa1058
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Publications
More detailed information about this field from each metasource.
MobiDB 3.0: more annotations for intrinsic disorder, conformational diversity and interactions in proteins
PMID: 29136219
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:17.118832
MobiDB 2.0: an improved database of intrinsically disordered and mobile proteins
PMID: 25361972
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:17.118832
MobiDB: a comprehensive database of intrinsic protein disorder annotations
PMID: 22661649
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:17.118832
MobiDB: intrinsically disordered proteins in 2021
PMID: 33237329
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:17.118832
https://doi.org/10.1093/nar/gkaa1058
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
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MobiDB 3.0: more annotations for intrinsic disorder, conformational diversity and interactions in proteins
PubMed citations: 102.
102 articles citing: MobiDB 3.0: more annotations for intrinsic disorder, conformational diversity and interactions in proteins
JmjC Family of Histone Demethylases Form Nuclear Condensates. PMID:35887017
Getting Closer to Decrypting the Phase Transitions of Bacterial Biomolecules. PMID:35883463
IDPsBind: a repository of binding sites for intrinsically disordered proteins complexes with known 3D structures. PMID:35883018
Lighting up Nobel Prize-winning studies with protein intrinsic disorder. PMID:35882686
JMJD3 intrinsically disordered region links the 3D-genome structure to TGFβ-dependent transcription activation. PMID:35672304
Intrinsically disordered signaling proteins: Essential hub players in the control of stress responses in Saccharomyces cerevisiae. PMID:35290420
Characterization of intrinsically disordered regions in proteins informed by human genetic diversity. PMID:35275927
D3PM: a comprehensive database for protein motions ranging from residue to domain. PMID:35164668
DisEnrich: Database of Enriched Regions in Human Dark Proteome. PMID:35094056
MemDis: Predicting Disordered Regions in Transmembrane Proteins. PMID:34830151
Sequence, structural and functional conservation among the human and fission yeast ELL and EAF transcription elongation factors. PMID:34807377
CHD4 Conceals Aberrant CTCF-Binding Sites at TAD Interiors by Regulating Chromatin Accessibility in Mouse Embryonic Stem Cells. PMID:34764232
Unipolar Peptidoglycan Synthesis in the Rhizobiales Requires an Essential Class A Penicillin-Binding Protein. PMID:34544272
Independent transcriptomic and proteomic regulation by type I and II protein arginine methyltransferases. PMID:34505004
Metapredict: a fast, accurate, and easy-to-use predictor of consensus disorder and structure. PMID:34480923
Duo: A Signature Based Method to Batch-Analyze Functional Similarities of Proteins. PMID:34475860
Insight into membraneless organelles and their associated proteins: Drivers, Clients and Regulators. PMID:34377363
A prion-like protein regulator of seed germination undergoes hydration-dependent phase separation. PMID:34233164
Order from disorder in the sarcomere: FATZ forms a fuzzy but tight complex and phase-separated condensates with α-actinin. PMID:34049882
QUARTERplus: Accurate disorder predictions integrated with interpretable residue-level quality assessment scores. PMID:34025946
Structural Profiling of Bacterial Effectors Reveals Enrichment of Host-Interacting Domains and Motifs. PMID:34012977
Prediction of secondary structure population and intrinsic disorder of proteins using multitask deep learning. PMID:33936509
TFG binds LC3C to regulate ULK1 localization and autophagosome formation. PMID:33932238
Critical assessment of protein intrinsic disorder prediction. PMID:33875885
In Silico Analysis of Huntingtin Homologs in Lower Eukaryotes. PMID:33809947
Mutations of Intrinsically Disordered Protein Regions Can Drive Cancer but Lack Therapeutic Strategies. PMID:33806614
Biological Phase Separation and Biomolecular Condensates in Plants. PMID:33684296
Computational Screening of Phase-separating Proteins. PMID:33610793
Computational resources for identifying and describing proteins driving liquid-liquid phase separation. PMID:33517364
A corset function of exoskeletal ECM promotes body elongation in Drosophila. PMID:33469125
The complexity of protein interactions unravelled from structural disorder. PMID:33417598
Assessing the low complexity of protein sequences via the low complexity triangle. PMID:33378336
RELT stains prominently in B-cell lymphomas and binds the hematopoietic transcription factor MDFIC. PMID:33367115
PED in 2021: a major update of the protein ensemble database for intrinsically disordered proteins. PMID:33305318
Comparative Assessment of Intrinsic Disorder Predictions with a Focus on Protein and Nucleic Acid-Binding Proteins. PMID:33291838
Liquid-Liquid Phase Separation by Intrinsically Disordered Protein Regions of Viruses: Roles in Viral Life Cycle and Control of Virus-Host Interactions. PMID:33260713
RNA nucleation by MSL2 induces selective X chromosome compartmentalization. PMID:33208948
The ZSWIM8 ubiquitin ligase mediates target-directed microRNA degradation. PMID:33184237
Computational drug re-purposing targeting the spike glycoprotein of SARS-CoV-2 as an effective strategy to neutralize COVID-19. PMID:33160938
The InterPro protein families and domains database: 20 years on. PMID:33156333
Pfam: The protein families database in 2021. PMID:33125078
The MemMoRF database for recognizing disordered protein regions interacting with cellular membranes. PMID:33119751
DescribePROT: database of amino acid-level protein structure and function predictions. PMID:33119734
Chasing coevolutionary signals in intrinsically disordered proteins complexes. PMID:33087759
Zinc and Copper Ions Differentially Regulate Prion-Like Phase Separation Dynamics of Pan-Virus Nucleocapsid Biomolecular Condensates. PMID:33081049
IDPology of the living cell: intrinsic disorder in the subcellular compartments of the human cell. PMID:32997198
The E3 ubiquitin-protein ligase MDM2 is a novel interactor of the von Hippel-Lindau tumor suppressor. PMID:32985545
Protein Databases Related to Liquid-Liquid Phase Separation. PMID:32947964
Orchestration of signaling by structural disorder in class 1 cytokine receptors. PMID:32831102
αβDCA method identifies unspecific binding but specific disruption of the group I intron by the StpA chaperone. PMID:32747608
Protein-Protein Interactions Mediated by Intrinsically Disordered Protein Regions Are Enriched in Missense Mutations. PMID:32722039
Predicting Conformational Properties of Intrinsically Disordered Proteins from Sequence. PMID:32696367
Exploring Protein Intrinsic Disorder with MobiDB. PMID:32696355
Analyzing the Sequences of Intrinsically Disordered Regions with CIDER and localCIDER. PMID:32696354
How to Annotate and Submit a Short Linear Motif to the Eukaryotic Linear Motif Resource. PMID:32696353
Unified inference of missense variant effects and gene constraints in the human genome. PMID:32667917
The Intrinsically Disordered Protein CARP9 Bridges HYL1 to AGO1 in the Nucleus to Promote MicroRNA Activity. PMID:32636339
Dark Proteome Database: Studies on Disorder. PMID:32629790
Experimentally Determined Long Intrinsically Disordered Protein Regions Are Now Abundant in the Protein Data Bank. PMID:32599863
A Unified De Novo Approach for Predicting the Structures of Ordered and Disordered Proteins. PMID:32525675
Two-step mechanism for selective incorporation of lncRNA into a chromatin modifier. PMID:32510132
Phase-separated bacterial ribonucleoprotein bodies organize mRNA decay. PMID:32445438
Pan-retroviral Nucleocapsid-Mediated Phase Separation Regulates Genomic RNA Positioning and Trafficking. PMID:32320662
A New Census of Protein Tandem Repeats and Their Relationship with Intrinsic Disorder. PMID:32283633
Disordered Residues and Patterns in the Protein Data Bank. PMID:32230759
Identification of a PRC2 Accessory Subunit Required for Subtelomeric H3K27 Methylation in Neurospora crassa. PMID:32179551
Hyper-phosphorylation of nsp2-related proteins of porcine reproductive and respiratory syndrome virus. PMID:32174300
Mutations in disordered proteins as early indicators of nucleic acid changes triggering speciation. PMID:32161300
The Order-Disorder Continuum: Linking Predictions of Protein Structure and Disorder through Molecular Simulation. PMID:32034199
Dynamic conformational flexibility and molecular interactions of intrinsically disordered proteins. PMID:32020911
LLPSDB: a database of proteins undergoing liquid-liquid phase separation in vitro. PMID:31906602
The dark side of Alzheimer's disease: unstructured biology of proteins from the amyloid cascade signaling pathway. PMID:31894361
An intrinsically disordered proteins community for ELIXIR. PMID:31824649
Evolutionary Forces and Codon Bias in Different Flavors of Intrinsic Disorder in the Human Proteome. PMID:31820049
New C-Terminal Conserved Regions of Tafazzin, a Catalyst of Cardiolipin Remodeling. PMID:31781330
DisProt: intrinsic protein disorder annotation in 2020. PMID:31713636
DrLLPS: a data resource of liquid-liquid phase separation in eukaryotes. PMID:31691822
ELM-the eukaryotic linear motif resource in 2020. PMID:31680160
DISOselect: Disorder predictor selection at the protein level. PMID:31642118
PDBe-KB: a community-driven resource for structural and functional annotations. PMID:31584092
PhaSepDB: a database of liquid-liquid phase separation related proteins. PMID:31584089
Molecular evolution of the meiotic recombination pathway in mammals. PMID:31579931
Intrinsically disordered proteins and structured proteins with intrinsically disordered regions have different functional roles in the cell. PMID:31425549
Structural Basis of the Subcellular Topology Landscape of Escherichia coli. PMID:31404336
Why do eukaryotic proteins contain more intrinsically disordered regions? PMID:31329574
Performance of computational methods for the evaluation of pericentriolar material 1 missense variants in CAGI-5. PMID:31260570
A Non-Dicer RNase III and Four Other Novel Factors Required for RNAi-Mediated Transposon Suppression in the Human Pathogenic Yeast Cryptococcus neoformans. PMID:31092606
Computational Characterization of the mtORF of Pocilloporid Corals: Insights into Protein Structure and Function in Stylophora Lineages from Contrasting Environments. PMID:31035578
Quality and bias of protein disorder predictors. PMID:30914747
Global analysis of methionine oxidation provides a census of folding stabilities for the human proteome. PMID:30846556
Wnt/Beta-Catenin Signaling Regulation and a Role for Biomolecular Condensates. PMID:30782412
Disentangling the complexity of low complexity proteins. PMID:30698641
Quantitative live-cell imaging and 3D modeling reveal critical functional features in the cytosolic complex of phagocyte NADPH oxidase. PMID:30630949
Where differences resemble: sequence-feature analysis in curated databases of intrinsically disordered proteins. PMID:30576490
Nuclear condensates of the Polycomb protein chromobox 2 (CBX2) assemble through phase separation. PMID:30514760
SIFTS: updated Structure Integration with Function, Taxonomy and Sequences resource allows 40-fold increase in coverage of structure-based annotations for proteins. PMID:30445541
InterPro in 2019: improving coverage, classification and access to protein sequence annotations. PMID:30398656
A Protein Intrinsic Disorder Approach for Characterising Differentially Expressed Genes in Transcriptome Data: Analysis of Cell-Adhesion Regulated Gene Expression in Lymphoma Cells. PMID:30308971
Calcium-binding proteins that are type B″ regulatory subunits of phosphatase 2A in Giardia intestinalis. PMID:30043281
Structural insights and characterization of human Npas4 protein. PMID:29915698
IUPred2A: context-dependent prediction of protein disorder as a function of redox state and protein binding. PMID:29860432
Comprehensive Analysis of Constraint on the Spatial Distribution of Missense Variants in Human Protein Structures. PMID:29455857 -
MobiDB 2.0: an improved database of intrinsically disordered and mobile proteins
PubMed citations: 99.
99 articles citing: MobiDB 2.0: an improved database of intrinsically disordered and mobile proteins
The Multivalent Polyampholyte Domain of Nst1, a P-Body-Associated Saccharomyces cerevisiae Protein, Provides a Platform for Interacting with P-Body Components. PMID:35806385
Predicting Protein Conformational Disorder and Disordered Binding Sites. PMID:35507260
Function of SYDE C2-RhoGAP family as signaling hubs for neuronal development deduced by computational analysis. PMID:35279680
Overexpression of the microtubule-binding protein CLIP-170 induces a +TIP network superstructure consistent with a biomolecular condensate. PMID:34890409
Metapredict: a fast, accurate, and easy-to-use predictor of consensus disorder and structure. PMID:34480923
Whole-Genome Analysis Reveals That the Nucleoid Protein IHF Predominantly Binds to the Replication Origin oriC Specifically at the Time of Initiation. PMID:34475859
Purification and characterisation of the dimeric group 12 allergen from Blomia tropicalis heterologously expressed by Escherichia coli Top10F´. PMID:33914278
Tackling Covid-19 using disordered-to-order transition of residues in the spike protein upon angiotensin-converting enzyme 2 binding. PMID:33893649
In Silico Analysis of Huntingtin Homologs in Lower Eukaryotes. PMID:33809947
A proteomics approach for the identification of cullin-9 (CUL9) related signaling pathways in induced pluripotent stem cell models. PMID:33705438
Chasing coevolutionary signals in intrinsically disordered proteins complexes. PMID:33087759
Exploring Protein Intrinsic Disorder with MobiDB. PMID:32696355
The Intrinsically Disordered Protein CARP9 Bridges HYL1 to AGO1 in the Nucleus to Promote MicroRNA Activity. PMID:32636339
The pVHL neglected functions, a tale of hypoxia-dependent and -independent regulations in cancer. PMID:32603638
SPOT-Disorder2: Improved Protein Intrinsic Disorder Prediction by Ensembled Deep Learning. PMID:32173600
A comprehensive non-redundant gene catalog reveals extensive within-community intraspecies diversity in the human vagina. PMID:32103005
Selective autophagy maintains centrosome integrity and accurate mitosis by turnover of centriolar satellites. PMID:31519908
Disorder Atlas: Web-based software for the proteome-based interpretation of intrinsic disorder predictions. PMID:31326853
CAPRI enables comparison of evolutionarily conserved RNA interacting regions. PMID:31213602
Characterization of intellectual disability and autism comorbidity through gene panel sequencing. PMID:31209962
Codon selection reduces GC content bias in nucleic acids encoding for intrinsically disordered proteins. PMID:31175370
Importance of the Force Field Choice in Capturing Functionally Relevant Dynamics in the von Willebrand Factor. PMID:30933516
Sequence Effects on Size, Shape, and Structural Heterogeneity in Intrinsically Disordered Proteins. PMID:30913885
On the Need to Develop Guidelines for Characterizing and Reporting Intrinsic Disorder in Proteins. PMID:30793871
Small heat shock proteins: multifaceted proteins with important implications for life. PMID:30758704
Troubleshooting Guide to Expressing Intrinsically Disordered Proteins for Use in NMR Experiments. PMID:30713842
Interaction modulation through arrays of clustered methyl-arginine protein modifications. PMID:30456387
Stress susceptibility in Trypanosoma brucei lacking the RNA-binding protein ZC3H30. PMID:30273340
IDP⁻CRF: Intrinsically Disordered Protein/Region Identification Based on Conditional Random Fields. PMID:30135358
Functional and structural characterization of osteocytic MLO-Y4 cell proteins encoded by genes differentially expressed in response to mechanical signals in vitro. PMID:29712973
Disentangling the molecular determinants for Cenp-F localization to nuclear pores and kinetochores. PMID:29632243
Proteomic profiling of VCP substrates links VCP to K6-linked ubiquitylation and c-Myc function. PMID:29467282
Prediction of Disordered Regions and Their Roles in the Anti-Pathogenic and Immunomodulatory Functions of Butyrophilins. PMID:29401697
Identification of the Autochaperone Domain in the Type Va Secretion System (T5aSS): Prevalent Feature of Autotransporters with a β-Helical Passenger. PMID:29375499
Functional Analysis of Human Hub Proteins and Their Interactors Involved in the Intrinsic Disorder-Enriched Interactions. PMID:29257115
Intrinsic Disorder in Proteins with Pathogenic Repeat Expansions. PMID:29186753
Functional divergence of paralogous transcription factors supported the evolution of biomineralization in echinoderms. PMID:29154754
MobiDB 3.0: more annotations for intrinsic disorder, conformational diversity and interactions in proteins. PMID:29136219
Intrinsically disordered proteins in the nucleus of human cells. PMID:29124132
Prediction of protein disorder based on IUPred. PMID:29076577
The roles of intrinsic disorder-based liquid-liquid phase transitions in the "Dr. Jekyll-Mr. Hyde" behavior of proteins involved in amyotrophic lateral sclerosis and frontotemporal lobar degeneration. PMID:28980860
Is unphosphorylated Rex, as multifunctional protein of HTLV-1, a fully intrinsically disordered protein? An in silico study. PMID:28955936
Potential Roles of Intrinsic Disorder in Maternal-Effect Proteins Involved in the Maintenance of DNA Methylation. PMID:28869544
Dynamic scaffolds for neuronal signaling: in silico analysis of the TANC protein family. PMID:28754924
Usage of a dataset of NMR resolved protein structures to test aggregation versus solubility prediction algorithms. PMID:28685932
To be disordered or not to be disordered: is that still a question for proteins in the cell? PMID:28612216
Functional analyses yield detailed insight into the mechanism of thrombin inhibition by the antihemostatic salivary protein cE5 from Anopheles gambiae. PMID:28592490
Comprehensive review of methods for prediction of intrinsic disorder and its molecular functions. PMID:28589442
Dissecting physical structure of calreticulin, an intrinsically disordered Ca2+-buffering chaperone from endoplasmic reticulum. PMID:28504081
Novel interactions of the von Hippel-Lindau (pVHL) tumor suppressor with the CDKN1 family of cell cycle inhibitors. PMID:28425505
DisBind: A database of classified functional binding sites in disordered and structured regions of intrinsically disordered proteins. PMID:28381244
FOXP in Tetrapoda: Intrinsically Disordered Regions, Short Linear Motifs and their evolutionary significance. PMID:28257525
How disordered is my protein and what is its disorder for? A guide through the "dark side" of the protein universe. PMID:28232901
Intrinsic disorder in spondins and some of their interacting partners. PMID:28232900
Understanding the roles of intrinsic disorder in subunits of hemoglobin and the disease process of sickle cell anemia. PMID:28232898
Paradoxes and wonders of intrinsic disorder: Prevalence of exceptionality. PMID:28232891
An optimized Npro-based method for the expression and purification of intrinsically disordered proteins for an NMR study. PMID:28232886
Unreported intrinsic disorder in proteins: Disorder emergency room. PMID:28232885
Conformational diversity analysis reveals three functional mechanisms in proteins. PMID:28192432
ELLI-1, a novel germline protein, modulates RNAi activity and P-granule accumulation in Caenorhabditis elegans. PMID:28182654
Protein Bioinformatics Databases and Resources. PMID:28150231
Exploring the dark foldable proteome by considering hydrophobic amino acids topology. PMID:28134276
CIDER: Resources to Analyze Sequence-Ensemble Relationships of Intrinsically Disordered Proteins. PMID:28076807
The contribution of intrinsically disordered regions to protein function, cellular complexity, and human disease. PMID:27911701
InterPro in 2017-beyond protein family and domain annotations. PMID:27899635
DisProt 7.0: a major update of the database of disordered proteins. PMID:27899601
Intrinsic disorder in proteins involved in amyotrophic lateral sclerosis. PMID:27838743
FuzDB: database of fuzzy complexes, a tool to develop stochastic structure-function relationships for protein complexes and higher-order assemblies. PMID:27794553
Predicting Protein-Protein Interaction Sites Using Sequence Descriptors and Site Propensity of Neighboring Amino Acids. PMID:27792167
Large-scale analysis of intrinsic disorder flavors and associated functions in the protein sequence universe. PMID:27636733
Essential functions linked with structural disorder in organisms of minimal genome. PMID:27608806
Order, Disorder, and Everything in Between. PMID:27548131
VHLdb: A database of von Hippel-Lindau protein interactors and mutations. PMID:27511743
Unfoldomics of prostate cancer: on the abundance and roles of intrinsically disordered proteins in prostate cancer. PMID:27453073
Sequence Determinants of Intracellular Phase Separation by Complex Coacervation of a Disordered Protein. PMID:27392146
Intrinsic protein disorder in histone lysine methylation. PMID:27356874
A collection of intrinsic disorder characterizations from eukaryotic proteomes. PMID:27326998
The RING 2.0 web server for high quality residue interaction networks. PMID:27198219
ProViz-a web-based visualization tool to investigate the functional and evolutionary features of protein sequences. PMID:27085803
Functional correlations of respiratory syncytial virus proteins to intrinsic disorder. PMID:27062995
Disorder transitions and conformational diversity cooperatively modulate biological function in proteins. PMID:27038125
Prediction of intrinsically disordered regions in proteins using signal processing methods: application to heat-shock proteins. PMID:27037818
CoDNaS 2.0: a comprehensive database of protein conformational diversity in the native state. PMID:27022160
Bioinformatics analysis identifies several intrinsically disordered human E3 ubiquitin-protein ligases. PMID:26966660
There is Diversity in Disorder-"In all Chaos there is a Cosmos, in all Disorder a Secret Order". PMID:26904549
Compartmentalization and Functionality of Nuclear Disorder: Intrinsic Disorder and Protein-Protein Interactions in Intra-Nuclear Compartments. PMID:26712748
Intrinsic disorder and multiple phosphorylations constrain the evolution of the flightin N-terminal region. PMID:26691840
The Pfam protein families database: towards a more sustainable future. PMID:26673716
Experimental detection of short regulatory motifs in eukaryotic proteins: tips for good practice as well as for bad. PMID:26581338
DisPredict: A Predictor of Disordered Protein Using Optimized RBF Kernel. PMID:26517719
Tandem Repeats in Proteins: Prediction Algorithms and Biological Role. PMID:26442257
Intrinsically disordered caldesmon binds calmodulin via the "buttons on a string" mechanism. PMID:26417545
Computational approaches for inferring the functions of intrinsically disordered proteins. PMID:26301226
How Common Is Disorder? Occurrence of Disordered Residues in Four Domains of Life. PMID:26295225
Disorder Prediction Methods, Their Applicability to Different Protein Targets and Their Usefulness for Guiding Experimental Studies. PMID:26287166
Unfoldome variation upon plant-pathogen interactions: strawberry infection by Colletotrichum acutatum. PMID:26245354
Isoform-specific interactions of the von Hippel-Lindau tumor suppressor protein. PMID:26211615
A Method for Systematic Assessment of Intrinsically Disordered Protein Regions by NMR. PMID:26184172
DisCons: a novel tool to quantify and classify evolutionary conservation of intrinsic protein disorder. PMID:25968230 -
MobiDB: a comprehensive database of intrinsic protein disorder annotations
PubMed citations: 62.
62 articles citing: MobiDB: a comprehensive database of intrinsic protein disorder annotations
Computational Screening of Phase-separating Proteins. PMID:33610793
RELT stains prominently in B-cell lymphomas and binds the hematopoietic transcription factor MDFIC. PMID:33367115
DescribePROT: database of amino acid-level protein structure and function predictions. PMID:33119734
Analyzing IDPs in Interactomes. PMID:32696395
Exploring Protein Intrinsic Disorder with MobiDB. PMID:32696355
Disorder Atlas: Web-based software for the proteome-based interpretation of intrinsic disorder predictions. PMID:31326853
Codon selection reduces GC content bias in nucleic acids encoding for intrinsically disordered proteins. PMID:31175370
On the Need to Develop Guidelines for Characterizing and Reporting Intrinsic Disorder in Proteins. PMID:30793871
IDP⁻CRF: Intrinsically Disordered Protein/Region Identification Based on Conditional Random Fields. PMID:30135358
Human long intrinsically disordered protein regions are frequent targets of positive selection. PMID:29858274
Functional and structural characterization of osteocytic MLO-Y4 cell proteins encoded by genes differentially expressed in response to mechanical signals in vitro. PMID:29712973
Structural disorder of plasmid-encoded proteins in Bacteria and Archaea. PMID:29699482
Prediction of Disordered Regions and Their Roles in the Anti-Pathogenic and Immunomodulatory Functions of Butyrophilins. PMID:29401697
Functional Analysis of Human Hub Proteins and Their Interactors Involved in the Intrinsic Disorder-Enriched Interactions. PMID:29257115
Intrinsic Disorder in Proteins with Pathogenic Repeat Expansions. PMID:29186753
MobiDB 3.0: more annotations for intrinsic disorder, conformational diversity and interactions in proteins. PMID:29136219
Intrinsically disordered proteins in the nucleus of human cells. PMID:29124132
The roles of intrinsic disorder-based liquid-liquid phase transitions in the "Dr. Jekyll-Mr. Hyde" behavior of proteins involved in amyotrophic lateral sclerosis and frontotemporal lobar degeneration. PMID:28980860
Is unphosphorylated Rex, as multifunctional protein of HTLV-1, a fully intrinsically disordered protein? An in silico study. PMID:28955936
Potential Roles of Intrinsic Disorder in Maternal-Effect Proteins Involved in the Maintenance of DNA Methylation. PMID:28869544
Predictions of Backbone Dynamics in Intrinsically Disordered Proteins Using De Novo Fragment-Based Protein Structure Predictions. PMID:28765603
Comprehensive review of methods for prediction of intrinsic disorder and its molecular functions. PMID:28589442
Dissecting physical structure of calreticulin, an intrinsically disordered Ca2+-buffering chaperone from endoplasmic reticulum. PMID:28504081
DisBind: A database of classified functional binding sites in disordered and structured regions of intrinsically disordered proteins. PMID:28381244
Intrinsic disorder in spondins and some of their interacting partners. PMID:28232900
Understanding the roles of intrinsic disorder in subunits of hemoglobin and the disease process of sickle cell anemia. PMID:28232898
Paradoxes and wonders of intrinsic disorder: Prevalence of exceptionality. PMID:28232891
An optimized Npro-based method for the expression and purification of intrinsically disordered proteins for an NMR study. PMID:28232886
Unreported intrinsic disorder in proteins: Disorder emergency room. PMID:28232885
ELLI-1, a novel germline protein, modulates RNAi activity and P-granule accumulation in Caenorhabditis elegans. PMID:28182654
Intrinsic disorder in proteins involved in amyotrophic lateral sclerosis. PMID:27838743
Automatic detection and classification of leukocytes using convolutional neural networks. PMID:27822698
Physicochemical properties that control protein aggregation also determine whether a protein is retained or released from necrotic cells. PMID:27810968
Large-scale analysis of intrinsic disorder flavors and associated functions in the protein sequence universe. PMID:27636733
AUCpreD: proteome-level protein disorder prediction by AUC-maximized deep convolutional neural fields. PMID:27587688
Unfoldomics of prostate cancer: on the abundance and roles of intrinsically disordered proteins in prostate cancer. PMID:27453073
A collection of intrinsic disorder characterizations from eukaryotic proteomes. PMID:27326998
Disorder transitions and conformational diversity cooperatively modulate biological function in proteins. PMID:27038125
Prediction of intrinsically disordered regions in proteins using signal processing methods: application to heat-shock proteins. PMID:27037818
Computational analysis of prolyl hydroxylase domain-containing protein 2 (PHD2) mutations promoting polycythemia insurgence in humans. PMID:26754054
Compartmentalization and Functionality of Nuclear Disorder: Intrinsic Disorder and Protein-Protein Interactions in Intra-Nuclear Compartments. PMID:26712748
DisPredict: A Predictor of Disordered Protein Using Optimized RBF Kernel. PMID:26517719
Intrinsically disordered caldesmon binds calmodulin via the "buttons on a string" mechanism. PMID:26417545
Accurate Ab Initio and Template-Based Prediction of Short Intrinsically-Disordered Regions by Bidirectional Recurrent Neural Networks Trained on Large-Scale Datasets. PMID:26307973
Unfoldome variation upon plant-pathogen interactions: strawberry infection by Colletotrichum acutatum. PMID:26245354
DeepCNF-D: Predicting Protein Order/Disorder Regions by Weighted Deep Convolutional Neural Fields. PMID:26230689
Wrecked regulation of intrinsically disordered proteins in diseases: pathogenicity of deregulated regulators. PMID:25988147
Evolutionarily conserved network properties of intrinsically disordered proteins. PMID:25974317
Protein structure annotation resources. PMID:25502191
MobiDB 2.0: an improved database of intrinsically disordered and mobile proteins. PMID:25361972
PASTA 2.0: an improved server for protein aggregation prediction. PMID:24848016
Classification of intrinsically disordered regions and proteins. PMID:24773235
Modelling the yeast interactome. PMID:24589662
Determinants of expression variability. PMID:24435799
RepeatsDB: a database of tandem repeat protein structures. PMID:24311564
Comprehensive repertoire of foldable regions within whole genomes. PMID:24204229
IDEAL in 2014 illustrates interaction networks composed of intrinsically disordered proteins and their binding partners. PMID:24178034
Assessment of protein disorder region predictions in CASP10. PMID:23946100
Analysis and consensus of currently available intrinsic protein disorder annotation sources in the MobiDB database. PMID:23815411
The challenge of increasing Pfam coverage of the human proteome. PMID:23603847
Intrinsically disordered proteins and conformational noise: implications in cancer. PMID:23255110
D²P²: database of disordered protein predictions. PMID:23203878 -
MobiDB: intrinsically disordered proteins in 2021
PubMed citations: 39.
39 articles citing: MobiDB: intrinsically disordered proteins in 2021
CARs-DB: A Database of Cryptic Amyloidogenic Regions in Intrinsically Disordered Proteins. PMID:35898309
Assessing the clinical utility of protein structural analysis in genomic variant classification: experiences from a diagnostic laboratory. PMID:35869530
ERK2 MAP kinase regulates SUFU binding by multisite phosphorylation of GLI1. PMID:35831023
Liquid-liquid phase separation in tumor biology. PMID:35803926
Interpretable Deep Learning Model Reveals Subsequences of Various Functions for Long Non-Coding RNA Identification. PMID:35685437
DisPhaseDB: An integrative database of diseases related variations in liquid-liquid phase separation proteins. PMID:35685370
Complementarity of the residue-level protein function and structure predictions in human proteins. PMID:35615015
Protein lifetimes in aged brains reveal a proteostatic adaptation linking physiological aging to neurodegeneration. PMID:35594347
AlphaFold2: A Role for Disordered Protein/Region Prediction? PMID:35562983
RING 3.0: fast generation of probabilistic residue interaction networks from structural ensembles. PMID:35554554
Predicting Protein Conformational Disorder and Disordered Binding Sites. PMID:35507260
Deep learning in prediction of intrinsic disorder in proteins. PMID:35356546
Prion-like domains drive CIZ1 assembly formation at the inactive X chromosome. PMID:35289833
Characterization of intrinsically disordered regions in proteins informed by human genetic diversity. PMID:35275927
Databases for intrinsically disordered proteins. PMID:35102880
LLPSDB v2.0: an updated database of proteins undergoing liquid-liquid phase separation in vitro. PMID:35025997
Current status of PTMs structural databases: applications, limitations and prospects. PMID:35020020
Worldwide Protein Data Bank (wwPDB): A virtual treasure for research in biotechnology. PMID:34908533
Microsecond simulations and CD spectroscopy reveals the intrinsically disordered nature of SARS-CoV-2 spike-C-terminal cytoplasmic tail (residues 1242-1273) in isolation. PMID:34864296
DisProt in 2022: improved quality and accessibility of protein intrinsic disorder annotation. PMID:34850135
Bioinformatic Analysis of Lytic Polysaccharide Monooxygenases Reveals the Pan-Families Occurrence of Intrinsically Disordered C-Terminal Extensions. PMID:34827630
CHD4 Conceals Aberrant CTCF-Binding Sites at TAD Interiors by Regulating Chromatin Accessibility in Mouse Embryonic Stem Cells. PMID:34764232
PDBe-KB: collaboratively defining the biological context of structural data. PMID:34755867
RNAPhaSep: a resource of RNAs undergoing phase separation. PMID:34718740
The Eukaryotic Linear Motif resource: 2022 release. PMID:34718738
The Lon protease temporally restricts polar cell differentiation events during the Caulobacter cell cycle. PMID:34693909
Light-triggered and phosphorylation-dependent 14-3-3 association with NON-PHOTOTROPIC HYPOCOTYL 3 is required for hypocotyl phototropism. PMID:34675219
Adaptable P body physical states differentially regulate bicoid mRNA storage during early Drosophila development. PMID:34655524
Identification of Rare LRP5 Variants in a Cohort of Males with Impaired Bone Mass. PMID:34639175
Cryptic amyloidogenic regions in intrinsically disordered proteins: Function and disease association. PMID:34527192
A Hypothesis: Linking Phase Separation to Meiotic Sex Chromosome Inactivation and Sex-Body Formation. PMID:34485277
Metapredict: a fast, accurate, and easy-to-use predictor of consensus disorder and structure. PMID:34480923
Targeted modulation of protein liquid-liquid phase separation by evolution of amino-acid sequence. PMID:34428231
Amyloid Aggregation of Streptococcus mutans Cnm Influences Its Collagen-Binding Activity. PMID:34406827
Molecular Dynamics Simulations of Human FOXO3 Reveal Intrinsically Disordered Regions Spread Spatially by Intramolecular Electrostatic Repulsion. PMID:34201262
COSMIC Cancer Gene Census 3D database: understanding the impacts of mutations on cancer targets. PMID:34137435
IUPred3: prediction of protein disorder enhanced with unambiguous experimental annotation and visualization of evolutionary conservation. PMID:34048569
Mol* Viewer: modern web app for 3D visualization and analysis of large biomolecular structures. PMID:33956157
The 2021 Nucleic Acids Research database issue and the online molecular biology database collection. PMID:33396976 - https://doi.org/10.1093/nar/gkaa1058
Tags:
Tags
More detailed information about this field from each metasource.
binding
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
curated information
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
intrinsically disordered proteins
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
molecular structure
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
post-translational protein modification
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
protein
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
structure
metasource: Fairsharing.org
version: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
protein sequence databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
protein domain databases; protein classification
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
protein structure analysis
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:17.118832
protein disordered structure
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:17.118832
Tags
More detailed information about this field from each metasource.
binding
metasource: Fairsharing.orgversion: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
curated information
metasource: Fairsharing.orgversion: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
intrinsically disordered proteins
metasource: Fairsharing.orgversion: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
molecular structure
metasource: Fairsharing.orgversion: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
post-translational protein modification
metasource: Fairsharing.orgversion: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
protein
metasource: Fairsharing.orgversion: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
structure
metasource: Fairsharing.orgversion: FAIRsharing.org: MobiDB; MobiDB; DOI: https://doi.org/10.25504/FAIRsharing.jwra3e; Last edited: June 22, 2021, 11:59 a.m.; Last accessed: Jan 03 2022 7:07 p.m.
protein sequence databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
protein domain databases; protein classification
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
protein structure analysis
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:26:17.118832
protein disordered structure
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:26:17.118832
binding intrinsically disordered proteins molecular structure post-translational protein modification protein structure protein sequence protein domains and classification protein structure analysis protein disordered structure
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