phosphopeptides

Summary

Summary: PEPTIDES that incorporate a phosphate group via PHOSPHORYLATION.

Top Publications

  1. Thingholm T, Larsen M. The use of titanium dioxide micro-columns to selectively isolate phosphopeptides from proteolytic digests. Methods Mol Biol. 2009;527:57-66, xi pubmed publisher
    Titanium dioxide has very high affinity for phosphopeptides and it has become an efficient alternative to already existing methods for phosphopeptide enrichment from complex samples...
  2. Navajas R, Paradela A, Albar J. Immobilized metal affinity chromatography/reversed-phase enrichment of phosphopeptides and analysis by CID/ETD tandem mass spectrometry. Methods Mol Biol. 2011;681:337-48 pubmed publisher
  3. Shiromizu T, Adachi J, Watanabe S, Murakami T, Kuga T, Muraoka S, et al. Identification of missing proteins in the neXtProt database and unregistered phosphopeptides in the PhosphoSitePlus database as part of the Chromosome-centric Human Proteome Project. J Proteome Res. 2013;12:2414-21 pubmed publisher
    ..Our in-depth phosphoproteomic study represents a significant contribution to C-HPP. The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium with the data set identifier PXD000089. ..
  4. Park S, Maudsley S. Discontinuous pH gradient-mediated separation of TiO2-enriched phosphopeptides. Anal Biochem. 2011;409:81-8 pubmed publisher
    ..complexity of resultant enriched samples is often still high, suggesting that further separation of enriched phosphopeptides is required...
  5. Nagaraj N, D Souza R, Cox J, Olsen J, Mann M. Feasibility of large-scale phosphoproteomics with higher energy collisional dissociation fragmentation. J Proteome Res. 2010;9:6786-94 pubmed publisher
    ..We conclude that HCD in the new configuration is now a viable method for large-scale phosphoproteome analysis alongside collisional induced dissociation, (CID) and electron capture/transfer dissociation (ECD/ETD). ..
  6. Perego S, Cosentino S, Fiorilli A, Tettamanti G, Ferraretto A. Casein phosphopeptides modulate proliferation and apoptosis in HT-29 cell line through their interaction with voltage-operated L-type calcium channels. J Nutr Biochem. 2012;23:808-16 pubmed publisher
    ..Calcium in milk is associated with casein and casein phosphopeptides (CPPs), hence is preserved from precipitation...
  7. Rozman M. Modelling of the gas-phase phosphate group loss and rearrangement in phosphorylated peptides. J Mass Spectrom. 2011;46:949-55 pubmed publisher
    ..Unimolecular dissociation rate constants imply the low abundance of such scrambled product ions...
  8. Bridon G, Bonneil E, Muratore Schroeder T, Caron Lizotte O, Thibault P. Improvement of phosphoproteome analyses using FAIMS and decision tree fragmentation. application to the insulin signaling pathway in Drosophila melanogaster S2 cells. J Proteome Res. 2012;11:927-40 pubmed publisher
    ..interferences confers a unique advantage in phosphoproteomics by enhancing the detection of low abundance phosphopeptides. LC-FAIMS-MS experiments performed on TiO(2)-enriched tryptic digests from Drosophila melanogaster provided a ..
  9. Fonslow B, Niessen S, Singh M, Wong C, Xu T, Carvalho P, et al. Single-step inline hydroxyapatite enrichment facilitates identification and quantitation of phosphopeptides from mass-limited proteomes with MudPIT. J Proteome Res. 2012;11:2697-709 pubmed publisher
    Herein we report the characterization and optimization of single-step inline enrichment of phosphopeptides directly from small amounts of whole cell and tissue lysates (100-500 ?g) using a hydroxyapatite (HAP) microcolumn and ..

More Information

Publications79

  1. Ji L, Wu J, Luo Q, Li X, Zheng W, Zhai G, et al. Quantitative mass spectrometry combined with separation and enrichment of phosphopeptides by titania coated magnetic mesoporous silica microspheres for screening of protein kinase inhibitors. Anal Chem. 2012;84:2284-91 pubmed publisher
    ..MS quantification of phosphopeptides, the kinase-catalyzed products of nonphosphorylated substrates, is a great challenge due to the ion ..
  2. Palumbo A, Smith S, Kalcic C, Dantus M, Stemmer P, Reid G. Tandem mass spectrometry strategies for phosphoproteome analysis. Mass Spectrom Rev. 2011;30:600-25 pubmed publisher
    ..applied toward comprehensive phosphoproteomic analysis, based on the interrogation of proteolytically derived phosphopeptides. However, the utility of each of these MS/MS and MS(n) approaches for phosphopeptide identification and ..
  3. Sun S, Ma H, Han G, Wu R, Zou H, Liu Y. Efficient enrichment and identification of phosphopeptides by cerium oxide using on-plate matrix-assisted laser desorption/ionization time-of-flight mass spectrometric analysis. Rapid Commun Mass Spectrom. 2011;25:1862-8 pubmed publisher
    An efficient and simple method for enrichment and identification of phosphopeptides by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) using cerium oxide is presented...
  4. Taus T, Kocher T, Pichler P, Paschke C, Schmidt A, Henrich C, et al. Universal and confident phosphorylation site localization using phosphoRS. J Proteome Res. 2011;10:5354-62 pubmed publisher
    ..Tandem mass spectra from synthetic phosphopeptides were used for optimization of the scoring parameters employing all commonly used fragmentation techniques...
  5. Zeng Y, Chen H, Shiau K, Hung S, Wang Y, Wu C. Efficient enrichment of phosphopeptides by magnetic TiO?-coated carbon-encapsulated iron nanoparticles. Proteomics. 2012;12:380-90 pubmed publisher
    ..magnetic carbon-encapsulated iron nanoparticles as affinity probes for efficient enrichment of phosphopeptides. By using the new magnetic TiO? affinity probes, denoted as TiO?-coated Fe@CNPs, rapid and effective MALDI-..
  6. Hennrich M, van den Toorn H, Groenewold V, Heck A, Mohammed S. Ultra acidic strong cation exchange enabling the efficient enrichment of basic phosphopeptides. Anal Chem. 2012;84:1804-8 pubmed publisher
    We present a straightforward method to enrich phosphopeptides with multiple basic residues, an under-represented class in common enrichment strategies...
  7. Palmisano G, Parker B, Engholm Keller K, Lendal S, Kulej K, Schulz M, et al. A novel method for the simultaneous enrichment, identification, and quantification of phosphopeptides and sialylated glycopeptides applied to a temporal profile of mouse brain development. Mol Cell Proteomics. 2012;11:1191-202 pubmed publisher
    ..protocol and hydrophilic interaction liquid chromatography to simultaneously enrich, identify and quantify phosphopeptides and formerly N-linked sialylated glycopeptides to monitor changes associated with cell signaling during mouse ..
  8. Chandramouli K, Reish D, Qian P. Gel-based and gel-free identification of proteins and phosphopeptides during egg-to-larva transition in polychaete Neanthes arenaceodentata. PLoS ONE. 2012;7:e38814 pubmed publisher
    ..arenaceodentata. A gel-based approach and gel-free enrichment of phosphopeptides coupled with mass spectrometry were used to identify proteins and phosphopeptides in fertilized ova and ..
  9. Thingholm T, Jensen O, Larsen M. Analytical strategies for phosphoproteomics. Proteomics. 2009;9:1451-68 pubmed publisher
    ..Emphasis will be on the affinity methods utilized specifically for phosphoprotein and phosphopeptide enrichment prior to MS analysis, and on recent applications of these methods in cell biological applications. ..
  10. Thingholm T, Jensen O. Enrichment and characterization of phosphopeptides by immobilized metal affinity chromatography (IMAC) and mass spectrometry. Methods Mol Biol. 2009;527:47-56, xi pubmed publisher
    ..chromatography (IMAC) and mass spectrometry is a widely used technique for enrichment and sequencing of phosphopeptides. In the IMAC method, negatively charged phosphate groups interact with positively charged metal ions (Fe3+, ..
  11. Chen Y, Hoehenwarter W, Weckwerth W. Comparative analysis of phytohormone-responsive phosphoproteins in Arabidopsis thaliana using TiO2-phosphopeptide enrichment and mass accuracy precursor alignment. Plant J. 2010;63:1-17 pubmed publisher
    ..In total, 152 phosphopeptides were identified as differentially regulated; these phosphopeptides are involved in a wide variety of ..
  12. Schmidt A, Gehlenborg N, Bodenmiller B, Mueller L, Campbell D, Mueller M, et al. An integrated, directed mass spectrometric approach for in-depth characterization of complex peptide mixtures. Mol Cell Proteomics. 2008;7:2138-50 pubmed publisher
    ..Compared with conventional DDA LC-MS/MS experiments, a substantially higher number of peptides could be identified from a sample, and this increase was more pronounced for low intensity precursor ions. ..
  13. Nie S, Dai J, Ning Z, Cao X, Sheng Q, Zeng R. Comprehensive profiling of phosphopeptides based on anion exchange followed by flow-through enrichment with titanium dioxide (AFET). J Proteome Res. 2010;9:4585-94 pubmed publisher
    ..Because each method differed in their specificity of isolation, the global and unbiased enrichment of phosphopeptides remains a major technical challenge in phosphoproteomics...
  14. McNulty D, Annan R. Hydrophilic interaction chromatography reduces the complexity of the phosphoproteome and improves global phosphopeptide isolation and detection. Mol Cell Proteomics. 2008;7:971-80 pubmed publisher
    ..We exploited the strong hydrophilicity of the phosphate group to selectively enrich and fractionate phosphopeptides based on their increased retention under HILIC conditions...
  15. de la Fuente van Bentem S, Anrather D, Roitinger E, Djamei A, Hufnagl T, Barta A, et al. Phosphoproteomics reveals extensive in vivo phosphorylation of Arabidopsis proteins involved in RNA metabolism. Nucleic Acids Res. 2006;34:3267-78 pubmed
    ..Here, we show the application of immobilized metal affinity chromatography to purify phosphopeptides from Arabidopsis extracts...
  16. Manak M, Ferl R. Divalent cation effects on interactions between multiple Arabidopsis 14-3-3 isoforms and phosphopeptide targets. Biochemistry. 2007;46:1055-63 pubmed
    ..The general result for all cases is that an increased concentration of divalent cations in solution causes an increase in the concentration of 14-3-3 protein interacting with the respective phosphopeptide. ..
  17. Bodenmiller B, Mueller L, Pedrioli P, Pflieger D, Jünger M, Eng J, et al. An integrated chemical, mass spectrometric and computational strategy for (quantitative) phosphoproteomics: application to Drosophila melanogaster Kc167 cells. Mol Biosyst. 2007;3:275-86 pubmed
    ..First, most methods for phosphopeptide enrichment lack the specificity to truly purify phosphopeptides. Second, fragmentation spectra of phosphopeptides, in particular those of phosphoserine and phosphothreonine ..
  18. Molina H, Horn D, Tang N, Mathivanan S, Pandey A. Global proteomic profiling of phosphopeptides using electron transfer dissociation tandem mass spectrometry. Proc Natl Acad Sci U S A. 2007;104:2199-204 pubmed
    ..detailed comparison of ETD and collision-induced dissociation (CID) modes showed that ETD identified 60% more phosphopeptides than CID, with an average of 40% more fragment ions that facilitated localization of phosphorylation sites...
  19. Alpert A. Electrostatic repulsion hydrophilic interaction chromatography for isocratic separation of charged solutes and selective isolation of phosphopeptides. Anal Chem. 2008;80:62-76 pubmed
    ..ERLIC affords convenient separations of highly charged peptides that cannot readily be resolved by other means. In addition, phosphopeptides can be isolated selectively from a tryptic digest.
  20. Guilloteau P, Romé V, Delaby L, Mendy F, Roger L, Chayvialle J. A new role of phosphopeptides as bioactive peptides released during milk casein digestion in the young mammal: regulation of gastric secretion. Peptides. 2009;30:2221-7 pubmed publisher
    The aim of this work was to study in vivo the effect of ingestion of phosphopeptides (PP) alone or associated with caseinomacropeptide (CMP) on gastric secretion and to elucidate some possible mechanisms involved...
  21. Macek B, Gnad F, Soufi B, Kumar C, Olsen J, Mijakovic I, et al. Phosphoproteome analysis of E. coli reveals evolutionary conservation of bacterial Ser/Thr/Tyr phosphorylation. Mol Cell Proteomics. 2008;7:299-307 pubmed
    ..Our results establish Ser/Thr/Tyr phosphorylation as a common posttranslational modification in Eubacteria, present since the onset of cellular life. ..
  22. Zahedi R, Lewandrowski U, Wiesner J, Wortelkamp S, Moebius J, Schütz C, et al. Phosphoproteome of resting human platelets. J Proteome Res. 2008;7:526-34 pubmed
    ..Thus, our finding that GPIbalpha is phosphorylated at Ser603 in resting platelets may represent a novel mechanism for the regulation of one of the most important platelet receptor (GPIb-IX-V) mediated signaling pathways by PKA/PKG. ..
  23. Nett I, Martin D, Miranda Saavedra D, Lamont D, Barber J, Mehlert A, et al. The phosphoproteome of bloodstream form Trypanosoma brucei, causative agent of African sleeping sickness. Mol Cell Proteomics. 2009;8:1527-38 pubmed publisher
    ..parasite, resulting in the identification of 491 phosphoproteins based on the identification of 852 unique phosphopeptides and 1204 phosphorylation sites...
  24. Gao J, Agrawal G, Thelen J, Xu D. P3DB: a plant protein phosphorylation database. Nucleic Acids Res. 2009;37:D960-2 pubmed publisher
    ..was integrated and a phosphopeptide BLAST browser was implemented to allow users to query the database for phosphopeptides similar to protein sequences of their interest...
  25. Sweet S, Bailey C, Cunningham D, Heath J, Cooper H. Large scale localization of protein phosphorylation by use of electron capture dissociation mass spectrometry. Mol Cell Proteomics. 2009;8:904-12 pubmed publisher
    ..The combination of confident CID and ECD identification and confident CID and ECD localization is particularly valuable in cases where a phosphopeptide is identified just once within a phosphoproteomics experiment. ..
  26. Thingholm T, Jensen O, Robinson P, Larsen M. SIMAC (sequential elution from IMAC), a phosphoproteomics strategy for the rapid separation of monophosphorylated from multiply phosphorylated peptides. Mol Cell Proteomics. 2008;7:661-71 pubmed
    ..More than double the total number of identified phosphorylation sites was obtained with SIMAC, primarily from a 3-fold increase in recovery of multiply phosphorylated peptides. ..
  27. Thingholm T, Jensen O, Larsen M. Enrichment and separation of mono- and multiply phosphorylated peptides using sequential elution from IMAC prior to mass spectrometric analysis. Methods Mol Biol. 2009;527:67-78, xi pubmed publisher
    Phospho-proteomics relies on methods for efficient purification and sequencing of phosphopeptides from highly complex biological systems using low amounts of starting material. Current methods for phosphopeptide enrichment, e.g...
  28. Li Q, Ning Z, Tang J, Nie S, Zeng R. Effect of peptide-to-TiO2 beads ratio on phosphopeptide enrichment selectivity. J Proteome Res. 2009;8:5375-81 pubmed publisher
    ..ratio is about 1:2-1:8 (mass/mass) to obtain the highest enrichment selectivity and the maximum phosphopeptides identification with single incubation...
  29. Thingholm T, Palmisano G, Kjeldsen F, Larsen M. Undesirable charge-enhancement of isobaric tagged phosphopeptides leads to reduced identification efficiency. J Proteome Res. 2010;9:4045-52 pubmed publisher
    ..Here we describe major drawbacks associated with isobaric labeling for the identification and quantitation of phosphopeptides using electrospray tandem mass spectrometry...
  30. Ye J, Zhang X, Young C, Zhao X, Hao Q, Cheng L, et al. Optimized IMAC-IMAC protocol for phosphopeptide recovery from complex biological samples. J Proteome Res. 2010;9:3561-73 pubmed publisher
    ..The improved IMAC-IMAC method should allow more detailed characterization of phosphoproteins in functional phosphoproteomics research projects. ..
  31. Whiteman S, Serazetdinova L, Jones A, Sanders D, Rathjen J, Peck S, et al. Identification of novel proteins and phosphorylation sites in a tonoplast enriched membrane fraction of Arabidopsis thaliana. Proteomics. 2008;8:3536-47 pubmed publisher
    ..These results provide the basis for future studies to elucidate the mechanistic regulation of tonoplast membrane transporters. ..
  32. Goto H, Inagaki M. Production of a site- and phosphorylation state-specific antibody. Nat Protoc. 2007;2:2574-81 pubmed
    ..This protocol is also applicable to the production of other types of antibodies, which specifically recognize the site-specific modification, such as acetylation, methylation and proteolysis. The protocol can be completed in 2-3 months. ..
  33. Dai J, Wang L, Wu Y, Sheng Q, Wu J, Shieh C, et al. Fully automatic separation and identification of phosphopeptides by continuous pH-gradient anion exchange online coupled with reversed-phase liquid chromatography mass spectrometry. J Proteome Res. 2009;8:133-41 pubmed publisher
    Most current technologies for the enrichment of phosphopeptides rely on a tandem combination of different chromatography modes...
  34. Nabetani T, Kim Y, Watanabe M, Ohashi Y, Kamiguchi H, Hirabayashi Y. Improved method of phosphopeptides enrichment using biphasic phosphate-binding tag/C18 tip for versatile analysis of phosphorylation dynamics. Proteomics. 2009;9:5525-33 pubmed publisher
    ..Therefore, enrichment of phosphopeptides is an important process for subsequent mass spectrometric analysis...
  35. Tan F, Zhang Y, Wang J, Wei J, Cai Y, Qian X. An efficient method for dephosphorylation of phosphopeptides by cerium oxide. J Mass Spectrom. 2008;43:628-32 pubmed
    In this article, an effective method for dephosphorylation of phosphopeptides by cerium oxide is described...
  36. Klemm C, Otto S, Wolf C, Haseloff R, Beyermann M, Krause E. Evaluation of the titanium dioxide approach for MS analysis of phosphopeptides. J Mass Spectrom. 2006;41:1623-32 pubmed
    The affinity of titanium dioxide for phosphate groups has been successfully used for enrichment of phosphopeptides from complex mixtures...
  37. Rowling P, Cook R, Itzhaki L. Toward classification of BRCA1 missense variants using a biophysical approach. J Biol Chem. 2010;285:20080-7 pubmed publisher
    ..Consequently, small molecule stabilization of the structure could be a generally applicable preventative therapeutic strategy for rescuing many BRCA1 mutations. ..
  38. Heazlewood J, Durek P, Hummel J, Selbig J, Weckwerth W, Walther D, et al. PhosPhAt: a database of phosphorylation sites in Arabidopsis thaliana and a plant-specific phosphorylation site predictor. Nucleic Acids Res. 2008;36:D1015-21 pubmed
    ..The Arabidopsis Protein Phosphorylation Site Database (PhosPhAt) provides a valuable resource to the plant science community and can be accessed through the following link http://phosphat.mpimp-golm.mpg.de. ..
  39. Lee M, Green R, Marsillac S, Coquelle N, Williams R, Yeung T, et al. Comprehensive analysis of missense variations in the BRCT domain of BRCA1 by structural and functional assays. Cancer Res. 2010;70:4880-90 pubmed publisher
  40. Ham B, Yang F, Jayachandran H, Jaitly N, Monroe M, Gritsenko M, et al. The influence of sample preparation and replicate analyses on HeLa Cell phosphoproteome coverage. J Proteome Res. 2008;7:2215-21 pubmed publisher
    ..b>Phosphopeptides were isolated from HeLa cells and analyzed by nano-reversed phase liquid chromatography electrospray ..
  41. McMurray J. Structural basis for the binding of high affinity phosphopeptides to Stat3. Biopolymers. 2008;90:69-79 pubmed
    ..To date, no NMR or X-ray crystallographic structures of high-affinity phosphopeptides complexed with the Stat3 SH2 domain are available to aid in the development of peptidomimetic antagonists...
  42. Nabetani T, Miyazaki K, Tabuse Y, Tsugita A. Analysis of acidic peptides with a matrix-assisted laser desorption/ionization mass spectrometry using positive and negative ion modes with additive monoammonium phosphate. Proteomics. 2006;6:4456-65 pubmed
    ..The negative ion mode together with the addition of ammonium salt provides us a useful method to detect the phosphorylation and/or sulfonation of protein in a simple manner. ..
  43. Giamas G, Hirner H, Shoshiashvili L, Grothey A, Gessert S, Kuhl M, et al. Phosphorylation of CK1delta: identification of Ser370 as the major phosphorylation site targeted by PKA in vitro and in vivo. Biochem J. 2007;406:389-98 pubmed
    ..In summary, we conclude that PKA phosphorylates CK1delta, predominantly at Ser370 in vitro and in vivo, and that site-specific phosphorylation of CK1delta by PKA plays an important role in modulating CK1delta-dependent processes. ..
  44. Huang H, Li L, Wu C, Schibli D, Colwill K, Ma S, et al. Defining the specificity space of the human SRC homology 2 domain. Mol Cell Proteomics. 2008;7:768-84 pubmed
    ..Different SH2 domains select for distinct phosphopeptides, and the function of a given SH2 domain is often dictated by the specific motifs that it recognizes...
  45. Stulemeijer I, Joosten M, Jensen O. Quantitative phosphoproteomics of tomato mounting a hypersensitive response reveals a swift suppression of photosynthetic activity and a differential role for hsp90 isoforms. J Proteome Res. 2009;8:1168-82 pubmed publisher
    ..b>Phosphopeptides were isolated from tomato seedlings expressing both Cf-4 and Avr4 using titanium dioxide columns and LC-MS/MS ..
  46. Nühse T, Yu K, Salomon A. Isolation of phosphopeptides by immobilized metal ion affinity chromatography. Curr Protoc Mol Biol. 2007;Chapter 18:Unit 18.13 pubmed publisher
    ..proteins can present a significant challenge, recent progress in the rapid, large-scale identification of phosphopeptides from complex protein mixtures by combinations of affinity chromatography and mass spectrometry provides a ..
  47. Dephoure N, Zhou C, Villen J, Beausoleil S, Bakalarski C, Elledge S, et al. A quantitative atlas of mitotic phosphorylation. Proc Natl Acad Sci U S A. 2008;105:10762-7 pubmed publisher
    ..The majority of sites on regulated phosphopeptides lie in [S/T]P motifs, the minimum required sequence for CDKs, suggesting that many of the proteins may be CDK ..
  48. Thingholm T, Jørgensen T, Jensen O, Larsen M. Highly selective enrichment of phosphorylated peptides using titanium dioxide. Nat Protoc. 2006;1:1929-35 pubmed
    ..The selectivity toward phosphopeptides is obtained by loading the sample in a 2,5-dihydroxybenzoic acid (DHB) or phthalic acid solution containing ..
  49. Zhou H, Tian R, Ye M, Xu S, Feng S, Pan C, et al. Highly specific enrichment of phosphopeptides by zirconium dioxide nanoparticles for phosphoproteome analysis. Electrophoresis. 2007;28:2201-15 pubmed
    Large-scale characterization of phosphoproteins requires highly specific methods for the purification of phosphopeptides because of the low abundance of phosphoproteins and substoichiometry of phosphorylation...
  50. Simon E, Young M, Chan A, Bao Z, Andrews P. Improved enrichment strategies for phosphorylated peptides on titanium dioxide using methyl esterification and pH gradient elution. Anal Biochem. 2008;377:234-42 pubmed publisher
    ..Titanium dioxide binds phosphopeptides under acidic conditions, and they can be eluted under basic conditions...
  51. Yu L, Zhu Z, Chan K, Issaq H, Dimitrov D, Veenstra T. Improved titanium dioxide enrichment of phosphopeptides from HeLa cells and high confident phosphopeptide identification by cross-validation of MS/MS and MS/MS/MS spectra. J Proteome Res. 2007;6:4150-62 pubmed
    ..Recently, titanium dioxide (TiO2) has been demonstrated to enrich phosphopeptides from simple peptide mixtures with high specificity; however, the technology has not been optimized...
  52. Pinkse M, Mohammed S, Gouw J, van Breukelen B, Vos H, Heck A. Highly robust, automated, and sensitive online TiO2-based phosphoproteomics applied to study endogenous phosphorylation in Drosophila melanogaster. J Proteome Res. 2008;7:687-97 pubmed
    ..With the combination of strong cation exchange chromatography with the online TiO 2 enrichment, 2152 phosphopeptides were enriched from 250 microg of protein originating for the cell lysate of Drosophila melanogaster S2 cells...
  53. Tischkowitz M, Hamel N, Carvalho M, Birrane G, Soni A, van Beers E, et al. Pathogenicity of the BRCA1 missense variant M1775K is determined by the disruption of the BRCT phosphopeptide-binding pocket: a multi-modal approach. Eur J Hum Genet. 2008;16:820-32 pubmed publisher
  54. Yun S, Moulaei T, Lim D, Bang J, Park J, Shenoy S, et al. Structural and functional analyses of minimal phosphopeptides targeting the polo-box domain of polo-like kinase 1. Nat Struct Mol Biol. 2009;16:876-82 pubmed publisher
    ..Here, we report the identification of minimal phosphopeptides that specifically interact with the PBD of human PLK1, but not those of the closely related PLK2 and PLK3...
  55. Mazanek M, Mituloviae G, Herzog F, Stingl C, Hutchins J, Peters J, et al. Titanium dioxide as a chemo-affinity solid phase in offline phosphopeptide chromatography prior to HPLC-MS/MS analysis. Nat Protoc. 2007;2:1059-69 pubmed
    ..These agents also improve the binding of phosphorylated peptides and block the binding of non-phosphorylated ones. This enrichment procedure takes 30 min, followed by a 100-min HPLC program, including washing and an elution gradient. ..
  56. Lee A, Yang H, Lim E, Kim J, Kim Y. Enrichment of phosphopeptides using bare magnetic particles. Rapid Commun Mass Spectrom. 2008;22:2561-4 pubmed publisher
    Magnetic iron(II, III) oxide (magnetite, Fe(3)O(4)) nanoparticles were used to selectively enrich phosphopeptides from tryptic digests of bovine beta-casein and from tryptic digest mixtures containing bovine beta-casein, cytochrome c, ..
  57. Schreiber T, Mäusbacher N, Breitkopf S, Grundner Culemann K, Daub H. Quantitative phosphoproteomics--an emerging key technology in signal-transduction research. Proteomics. 2008;8:4416-32 pubmed publisher
    ..Here, we provide an overview of these exciting developments and their potential to transform signal-transduction research into a technology-driven, high-throughput science. ..
  58. Motoyama A, Xu T, Ruse C, Wohlschlegel J, Yates J. Anion and cation mixed-bed ion exchange for enhanced multidimensional separations of peptides and phosphopeptides. Anal Chem. 2007;79:3623-34 pubmed
    ..The lower pKa of phosphopeptides led to specific enrichment in a single salt step resolving acidic phosphopeptides from other phospho- and non-..
  59. Zhou H, Xu S, Ye M, Feng S, Pan C, Jiang X, et al. Zirconium phosphonate-modified porous silicon for highly specific capture of phosphopeptides and MALDI-TOF MS analysis. J Proteome Res. 2006;5:2431-7 pubmed
    ..The analysis of phosphopeptides is still one of the most challenging tasks in proteomics research by mass spectrometry...
  60. Bodenmiller B, Mueller L, Mueller M, Domon B, Aebersold R. Reproducible isolation of distinct, overlapping segments of the phosphoproteome. Nat Methods. 2007;4:231-7 pubmed
    ..chromatography (IMAC) and titanium dioxide) to reproducibly, specifically and comprehensively isolate phosphopeptides from complex mixtures...
  61. Lo C, Chen W, Chen C, Chen Y. Rapid enrichment of phosphopeptides from tryptic digests of proteins using iron oxide nanocomposites of magnetic particles coated with zirconia as the concentrating probes. J Proteome Res. 2007;6:887-93 pubmed
    ..of magnetic particles coated with zirconia were used as affinity probes to selectively concentrate phosphopeptides from tryptic digests of alpha- and beta-caseins, milk, and egg white to exemplify the enrichment of ..
  62. Han G, Ye M, Zhou H, Jiang X, Feng S, Jiang X, et al. Large-scale phosphoproteome analysis of human liver tissue by enrichment and fractionation of phosphopeptides with strong anion exchange chromatography. Proteomics. 2008;8:1346-61 pubmed publisher
    The mixture of phosphopeptides enriched from proteome samples are very complex. To reduce the complexity it is necessary to fractionate the phosphopeptides...
  63. Wang Y, Klemke R. PhosphoBlast, a computational tool for comparing phosphoprotein signatures among large datasets. Mol Cell Proteomics. 2008;7:145-62 pubmed
    ..we describe the development of a computational program (PhosphoBlast) that can rapidly match thousands of phosphopeptides that share phosphorylation sites within and across species...
  64. Xiong X, Cui P, Hossain S, Xu R, Warner B, Guo X, et al. Allosteric inhibition of the nonMyristoylated c-Abl tyrosine kinase by phosphopeptides derived from Abi1/Hssh3bp1. Biochim Biophys Acta. 2008;1783:737-47 pubmed publisher
    ..Our findings suggest a novel mechanism by which Abl kinase is regulated in cells. ..
  65. Du X, Yang F, Manes N, Stenoien D, Monroe M, Adkins J, et al. Linear discriminant analysis-based estimation of the false discovery rate for phosphopeptide identifications. J Proteome Res. 2008;7:2195-203 pubmed publisher
    ..liquid chromatography coupled with tandem mass spectrometry (LC-MS/MS) has made it possible to characterize phosphopeptides in an increasingly large-scale and high-throughput fashion...
  66. Schilling M, Knapp D. Enrichment of phosphopeptides using biphasic immobilized metal affinity-reversed phase microcolumns. J Proteome Res. 2008;7:4164-72 pubmed publisher
    ..IMAC) based on Fe (3+) or Ga (3+) chelation is the most widely employed technique for the enrichment of phosphopeptides from biological samples prior to mass spectrometric analysis...
  67. Raijmakers R, Kraiczek K, De Jong A, Mohammed S, Heck A. Exploring the human leukocyte phosphoproteome using a microfluidic reversed-phase-TiO2-reversed-phase high-performance liquid chromatography phosphochip coupled to a quadrupole time-of-flight mass spectrometer. Anal Chem. 2010;82:824-32 pubmed publisher
    ..Recently, we introduced an approach that facilitates the analysis of phosphopeptides by performing automated, online, TiO(2) enrichment of phosphopeptides prior to mass spectrometry (MS) ..
  68. Aryal U, Ross A. Enrichment and analysis of phosphopeptides under different experimental conditions using titanium dioxide affinity chromatography and mass spectrometry. Rapid Commun Mass Spectrom. 2010;24:219-31 pubmed publisher
    ..and stringent washing of peptides with strongly acidic solutions ensured highly selective enrichment for phosphopeptides, with minimal carryover of non-phosphorylated peptides...
  69. Zhang Y, Ficarro S, Li S, Marto J. Optimized Orbitrap HCD for quantitative analysis of phosphopeptides. J Am Soc Mass Spectrom. 2009;20:1425-34 pubmed publisher
    ..Using this approach, we readily identify activated signaling pathways downstream of oncogenic mutants of Flt-3 kinase in a model system of human myeloid leukemia. ..
  70. Mandal P, Ren Z, Chen X, Xiong C, McMurray J. Structure-affinity relationships of glutamine mimics incorporated into phosphopeptides targeted to the SH2 domain of signal transducer and activator of transcription 3. J Med Chem. 2009;52:6126-41 pubmed publisher
    ..When Pro was replaced with cis-3,4-methanoproline, the glutamine mimic, (4R,5S)-4-amino-5-benzyloxyhexanamide resulted in an IC(50) of 69 nM, the highest affinity Stat3 inhibitor reported to date. ..