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PhosphopeptidesPeptide MappingPhosphorylationAmino Acid SequenceMolecular Sequence DataPhosphoserineKineticsBinding SitesProtein KinasesPhosphothreonineSerinePhosphoproteinsProtein BindingTrypsinHafniumPeptide FragmentsPhosphotyrosinesrc Homology DomainsSubstrate SpecificityMass SpectrometryElectrophoresis, Polyacrylamide GelTyrosineMolecular Weight14-3-3 ProteinsTitaniumRecombinant ProteinsMacromolecular SubstancesThreonineCaseinsPhosphoamino AcidsCell LineElectrophoresis, Gel, Two-DimensionalProteomicsCasein KinasesProtein Kinase CMutagenesis, Site-DirectedTandem Mass SpectrometryProtein Structure, TertiaryPeptidesCattleProtein ConformationPhosphorus RadioisotopesModels, MolecularRecombinant Fusion ProteinsChromatography, High Pressure LiquidProtein-Tyrosine KinasesPhosphatesHydrogen-Ion ConcentrationProtein-Serine-Threonine KinasesHSP20 Heat-Shock ProteinsSpectrometry, Mass, Electrospray IonizationEnzyme ActivationCalcium-Calmodulin-Dependent Protein KinasesChromatography, AffinityChromatography, LiquidCasein Kinase IIProteinsAdenosine TriphosphateRibosomal Protein S6Precipitin TestsSequence Homology, Amino AcidAmino AcidsEscherichia coliCarrier ProteinsRabbitsSignal TransductionCyclic AMP-Dependent Protein KinasesMutationDimerizationPhosphoprotein PhosphatasesCDC2 Protein KinaseTransfectionAmino Acid MotifsBase SequenceProto-Oncogene Proteins pp60(c-src)Tetradecanoylphorbol AcetateCell MembraneHeLa CellsCrystallography, X-RayProtein SubunitsChromatography, GelProtonsOncogene Protein pp60(v-src)Receptor, InsulinPhosphotransferasesProtein Tyrosine PhosphatasesSpectrometry, Mass, Matrix-Assisted Laser Desorption-IonizationNonheme Iron ProteinsGRB2 Adaptor ProteinAdaptor Proteins, Signal TransducingZirconiumChromatography, Ion ExchangeCalmodulinProto-Oncogene ProteinsCalciumStructure-Activity RelationshipGlutathione Transferase3T3 CellsSpectrometry, FluorescenceProteome
PeptidesProteinSite
Peptides4
  • Dr. Robin Park, Proteomics Bioinformatics Architect at Bruker, added: "Since our DL training model also incorporated phosphopeptide data, TIMScore enhanced the identification of phosphorylated PSMs and peptides by an average of 61% on our dataset. (przoom.com)
  • The ProteoExtract ® Phosphopeptide TiO 2 Enrichment Kit is a useful tool for enrichment of phosphorylated peptides from complex samples by a highly selective Titanium oxide solid phase. (emdmillipore.com)
  • Custom Workflow for the Confident Identification of Sulfotyrosine-Containing Peptides and Their Discrimination from Phosphopeptides. (liverpool.ac.uk)
  • Further HILIC enrichment on the tryptic-digested RBPs and MS analysis led to the first large-scale identification of O -GlcNAcylation and phosphorylation in the RNA-binding proteome, with 461 O -GlcNAc peptides corresponding to 300 RBPs and 671 phosphopeptides corresponding to 389 RBPs. (mcw.edu)
Protein4
  • Here we describe the synthesis of a series of α,β-phosphopeptides, based on the phosphoepitope site on YAP1 (yes-associated protein 1), and the biochemical, biophysical and structural characterization of their binding to 14-3-3 proteins. (rcsb.org)
  • Because of the low stoichiometry of protein phosphorylation, targeted enrichment prior to LC-MS/MS analysis is still essential. (martinfitzpatrick.com)
  • Purified bovine DARPP-32 was phosphorylated in vitro by casein kinase II to a stoichiometry greater than 2 mol of phosphate/mol of protein whereas two structurally and functionally related proteins, protein phosphatase inhibitor-1 and G-substrate, were poor substrates for this enzyme. (cornell.edu)
  • We defined quantitative signatures of ligand affinity based on protein phosphorylation and protein-protein interaction (PPI) stoichiometry for critical molecular events associated with TCR signaling. (nature.com)
Site3
  • Site localization of PTMs can be difficult due to lability, stoichiometry, or its preferential dissociation, and as more training data becomes available, we will add more PTMs to our TIMScore algorithm. (przoom.com)
  • Comparison of thermolytic phosphopeptide maps and determination of the phosphorylated residue by manual Edman degradation identified the main phosphorylation site in intact cells as Ser102. (cornell.edu)
  • The catalytic site is located at the base of a pronounced surface channel formed by the interface of the two domains, and regions of both domains interact with the phosphopeptide substrate. (rcsb.org)