441f6667b0e6aa10edb39f489fd2a4c5 pmc_34827596.pdf 5d4ff0440ffd55004a4c950c1cbd77bf2323eb04 pmc_34827596.pdf e553e0bb50b462a2e4fed8fb0d521e049def497deaa72a6c468f198433b86f67 pmc_34827596.pdf Title: DispHScan: A Multi-Sequence Web Tool for Predicting Protein Disorder as a Function of pH Subject: Proteins are exposed to fluctuating environmental conditions in their cellular context and during their biotechnological production. Disordered regions are susceptible to these fluctuations and may experience solvent-dependent conformational switches that affect their local dynamism and activity. In a recent study, we modeled the influence of pH in the conformational state of IDPs by exploiting a charge–hydrophobicity diagram that considered the effect of solution pH on both variables. However, it was not possible to predict context-dependent transitions for multiple sequences, precluding proteome-wide analysis or the screening of collections of mutants. In this article, we present DispHScan, the first computational tool dedicated to predicting pH-induced disorder–order transitions in large protein datasets. The DispHScan web server allows the users to run pH-dependent disorder predictions of multiple sequences and identify context-dependent conformational transitions. It might provide new insights on the role of pH-modulated conditional disorder in the physiology and pathology of different organisms. The DispHScan web server is freely available for academic users, it is platform-independent and does not require previous registration. Keywords: conditional disorder; pH; sequence analysis; protein structure; bioinformatics Author: Carlos Pintado-Grima, Valentín Iglesias, Jaime Santos, Vladimir N. Uversky and Salvador Ventura Creator: LaTeX with hyperref Producer: pdfTeX-1.40.21 CreationDate: Thu Oct 28 14:17:16 2021 CEST ModDate: Thu Oct 28 15:44:05 2021 CEST Tagged: no UserProperties: no Suspects: no Form: none JavaScript: no Pages: 7 Encrypted: no Page size: 595.276 x 841.89 pts (A4) Page rot: 0 File size: 625581 bytes Optimized: no PDF version: 1.7 name type encoding emb sub uni object ID ------------------------------------ ----------------- ---------------- --- --- --- --------- WLENKM+VnURWPalladioL-Bold Type 1 Custom yes yes no 10 0 PNJMNO+VnURWPalladioL Type 1 Custom yes yes no 15 0 OOREED+URWPalladioL-Ital Type 1 Custom yes yes no 19 0 CLVXXG+URWPalladioL-Bold Type 1 Custom yes yes no 24 0 TWDCYG+URWPalladioL-Roma Type 1 Custom yes yes no 28 0 IVVSWS+TimesNewRomanPS-BoldItalicMT Type 1C WinAnsi yes yes no 38 0 MCBCCI+SourceSansRoman-Regular Type 1C Custom yes yes no 68 0 MCBCCM+SourceSansRoman.613wght Type 1C Custom yes yes no 72 0 MCBCCO+SourceSansRoman-Bold Type 1C Custom yes yes no 76 0 JDBFFE+PalatinoLinotype,Bold TrueType WinAnsi yes yes no 91 0 JDBFFF+PalatinoLinotype CID TrueType Identity-H yes yes yes 94 0 JDBFFG+PalatinoLinotype TrueType WinAnsi yes yes no 100 0 JDBFGH+PalatinoLinotype,Italic TrueType WinAnsi yes yes no 103 0 JDUPKS+CMSY10 Type 1 Builtin yes yes no 110 0 OJGIFF+PalatinoLinotype TrueType WinAnsi yes yes no 124 0 URYLRZ+URWPalladioL-BoldItal Type 1 Custom yes yes no 131 0 Jhove (Rel. 1.22.1, 2019-04-17) Date: 2022-03-22 02:33:25 CET RepresentationInformation: pmc_34827596.pdf ReportingModule: PDF-hul, Rel. 1.12.1 (2019-04-17) LastModified: 2022-01-11 05:11:08 CET Size: 625581 Format: PDF Version: 1.7 Status: Well-Formed and valid SignatureMatches: PDF-hul MIMEtype: application/pdf PDFMetadata: Objects: 224 FreeObjects: 1 IncrementalUpdates: 0 DocumentCatalog: PageLayout: SinglePage PageMode: UseNone Outlines: Item: Title: Introduction Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@7b69c6ba Item: Title: Methods Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@46daef40 Children: Item: Title: DispHScan Pipeline Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@12f41634 Item: Title: Server Implementation Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@13c27452 Item: Title: Gene Ontology Annotation Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@262b2c86 Item: Title: Results Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@371a67ec Children: Item: Title: Performance Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@5ed828d Item: Title: Analysis of Model Organisms Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@50d0686 Item: Title: Discussion Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@7a3d45bd Item: Title: References Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@1e7c7811 Info: Title: DispHScan: A Multi-Sequence Web Tool for Predicting Protein Disorder as a Function of pH Author: Carlos Pintado-Grima, Valentín Iglesias, Jaime Santos, Vladimir N. Uversky and Salvador Ventura Subject: Proteins are exposed to fluctuating environmental conditions in their cellular context and during their biotechnological production. Disordered regions are susceptible to these fluctuations and may experience solvent-dependent conformational switches that affect their local dynamism and activity. In a recent study, we modeled the influence of pH in the conformational state of IDPs by exploiting a charge hydrophobicity diagram that considered the effect of solution pH on both variables. However, it was not possible to predict context-dependent transitions for multiple sequences, precluding proteome-wide analysis or the screening of collections of mutants. In this article, we present DispHScan, the first computational tool dedicated to predicting pH-induced disorder order transitions in large protein datasets. The DispHScan web server allows the users to run pH-dependent disorder predictions of multiple sequences and identify context-dependent conformational transitions. It might provide new insights on the role of pH-modulated conditional disorder in the physiology and pathology of different organisms. The DispHScan web server is freely available for academic users, it is platform-independent and does not require previous registration. 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