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1 Recovery is 90% for a pure phosphopeptide.
2 (D) of 0.35 nm in 1:1 binding to its cognate phosphopeptide.
3 er been used for the selective enrichment of phosphopeptides.
4 dues, interfering with the identification of phosphopeptides.
5 R, and EDX and employed in the enrichment of phosphopeptides.
6 r abilities to enrich for different types of phosphopeptides.
7 ave selective affinity and can interact with phosphopeptides.
8 percentage of longer, basic, and hydrophilic phosphopeptides.
9 mined 14-3-3-binding motifs from non-binding phosphopeptides.
10 ble quantitation across tens of thousands of phosphopeptides.
11 simultaneous enrichment of glycopeptides and phosphopeptides.
12 ysate, representing a more natural source of phosphopeptides.
13 omatography for the sequential enrichment of phosphopeptides.
14 cles to create membranes that rapidly enrich phosphopeptides.
15 uced efficiency, indicating a preference for phosphopeptides.
16 ation and enrichment of different classes of phosphopeptides.
17 tion-specific amino acid patterns in sets of phosphopeptides.
18 ation allows the selective identification of phosphopeptides.
19 ylation at 258 phosphosites, from 219 unique phosphopeptides.
20 lic QPSSSR peptide library as well as common phosphopeptides.
21 e CZE-MS/MS-based platform identified 11,555 phosphopeptides.
22 ntensity from low concentrations of enriched phosphopeptides.
23 hment provided more than 90% selectivity for phosphopeptides.
24 monoliths with surface layers selective for phosphopeptides.
25 ocols yielded comparable numbers of distinct phosphopeptides, 1693 and 1842, respectively, from micro
27 he phosphoproteomic results of increased T31 phosphopeptide abundance with decreased MKK2 abundance i
29 as also demonstrated on the basic and acidic phosphopeptides: acidophilic phosphorylation sites were
30 echniques that reproducibly measure the same phosphopeptides across multiple replicates, conditions,
32 ptide, and the interaction with the tyrosine phosphopeptide affects the pyruvate kinase activity of P
34 inase:substrate relationship analysis of the phosphopeptides also revealed ABL1 and SRC tyrosine kina
36 Using genetic, biochemical, and quantitative phosphopeptide analyses, we found that the E3 ubiquitin
38 (i) ratio distortion remained a problem for phosphopeptide analysis in multiplexed quantitative work
41 ical binding interface to recognize the Cdc7 phosphopeptide and a non-canonical interface to bind Dbf
44 tative phosphoproteomic dataset yielded 2250 phosphopeptides and 1314 localized phosphosites with exc
45 enriched considerably longer and more acidic phosphopeptides and consequently, we identified 327 phos
46 to global proteome, the workflow identified phosphopeptides and glycopeptides from the PTM enrichmen
50 an updated workflow to sequentially isolate phosphopeptides and N-glycopeptides, enabling multiple P
51 r studying weak bonds between metal ions and phosphopeptides and provided a direct means of thermodyn
52 ID fragmentation analysis between unmodified phosphopeptides and those modified online with FBDSA or
53 monstrated that PKM2 interacts with tyrosine phosphopeptide, and the interaction with the tyrosine ph
55 compensation voltage settings for unlabeled phosphopeptides, and demonstrate the advantages of FAIMS
57 esence of nano-TiO2 for selective binding of phosphopeptides, and the magnetic responsiveness of magn
58 signal intensities were enhanced for most pY-phosphopeptides (approximately 70%) when using the pY-MI
59 thodologies to enrich heterogeneous types of phosphopeptides are critical for comprehensive mapping o
60 present study, the fragmentation patterns of phosphopeptides are improved through ion/ion-mediated pe
63 phosphoproteomic study identified additional phosphopeptides as possible targets that show the involv
66 absorption and high cleavage coverage of the phosphopeptides at much lower irradiation fluence than f
68 re-affinity relationship studies showed that phosphopeptides based on Tyr631 from IL-4Ralpha bind wit
72 7 phosphorylation sites from 13029 different phosphopeptides belonging to 3163 different phosphoprote
74 d of yellow and blue fluorescent proteins, a phosphopeptide binding domain, a MAPK substrate domain a
75 e R377A does not cause a significant loss of phosphopeptide binding, but rather a tandem substitution
76 bryonic DNA damage responses by means of its phosphopeptide-binding ability: activating Mnk in the nu
77 rupting effect on the structure of the N-SH2 phosphopeptide-binding cleft mediating the interaction o
78 ylates UBF1 at Ser-412, thereby generating a phosphopeptide-binding epitope that binds the ECT2 BRCT
81 ures revealed that the monobodies occupy the phosphopeptide-binding sites of the SH2 domains and thus
83 structures of inactive, preactivated p44 and phosphopeptide-bound arrestins and will guide our unders
85 re minimal differences between enrichment of phosphopeptides by TiO2 and Ti(4+)-IMAC when considering
87 h throughput approach, based on high density phosphopeptide chips, to determine the in vitro substrat
88 thesis by determining the structure of a FHA:phosphopeptide complex, from which we design a constitut
91 demonstrate that electrophoretic mobility of phosphopeptides containing one phosphoryl group can be p
92 derived for only a few 14-3-3 complexes with phosphopeptide-containing proteins and a variety of comp
93 Phosphoproteomic analysis revealed that 19 phosphopeptides corresponding to 12 proteins were differ
94 ptides, we extracted 849 uniquely identified phosphopeptides corresponding to 425 proteins and identi
95 n total, the SPS-MS3 method quantified 38247 phosphopeptides, corresponding to 11000 phosphorylation
99 ochemical properties of pY-MIP-TiO2-enriched phosphopeptides demonstrated that this protocol retrieve
100 rative evaluations of enrichment methods for phosphopeptides depend highly on the experimental protoc
101 s not directly contact pTyr(1087) of a bound phosphopeptide derived from p190RhoGAP; rather, it makes
102 was synergistic with activation by a soluble phosphopeptide derived from receptor tyrosine kinases.
104 these in vitro phosphorylated peptides with phosphopeptides derived from endogenous proteins isolate
106 is study, we evaluated two HLA-A2-restricted phosphopeptides derived from the insulin receptor substr
109 proteins, >300 protein kinases, and >15,000 phosphopeptides, enabled deep insight into signaling rec
110 14-3-3 isotypes gamma, theta, and zeta with phosphopeptides encompassing pS910, pS935, or pS1444 dem
112 d human blood serum, are used to explore its phosphopeptide enrichment ability from complex samples f
113 hieve precise quantitation, followed by TiO2 phosphopeptide enrichment and high resolution mass spect
115 ere determined by a strategic combination of phosphopeptide enrichment and nano-ultra-performance liq
122 nd inactive states of kinases but performing phosphopeptide enrichment made it possible to measure th
123 rbents (Strata X-AW and Oasis WAX) and three phosphopeptide enrichment materials based on affinity ch
124 ffinity purification, mass spectrometry, and phosphopeptide enrichment of isotope-labeled peptides, w
126 We provide a free downloadable automated phosphopeptide enrichment program to facilitate uniform
127 been identified using these highly selective phosphopeptide enrichment protocols in combination with
128 The combination of pY-MIP- and TiO2-based phosphopeptide enrichment provided more than 90% selecti
129 ere, we simplified the assay by removing the phosphopeptide enrichment step, increasing throughput wh
132 se unique properties render the pY-MIP-based phosphopeptide enrichment technique an attractive altern
134 e composite exhibits enhanced capability for phosphopeptide enrichment with sensitivity assessed to b
135 amino acids in cell culture, affinity-based phosphopeptide enrichment, and high-resolution mass spec
136 an inverse strategy based on TiO2 selective phosphopeptide enrichment, fractionation by strong catio
138 ication technology (MudPIT), without or with phosphopeptide enrichment, was applied to study the prot
146 devised a strategy that enhances analysis of phosphopeptides, especially multiply phosphorylated pept
147 reacted with HPO4(2-), phosphoserine, and a phosphopeptide (FQpSEEQQQTEDELQDK, abbreviated "betacas"
149 fragments and comigration of PKC-stimulated phosphopeptide fragments with NDAT Ser-7 phosphopeptide
151 broblast cell lysate a total of 1,944 unique phosphopeptides from 1,087 unique phosphoproteins were i
154 methodology for the selective extraction of phosphopeptides from 40 muL of tryptic beta-casein diges
155 tem was applied for the enrichment of casein phosphopeptides from a simulated tryptic digest with bov
157 e protocols to enrich for subfemtomole-level phosphopeptides from cell line and human tissue samples
158 be developed to characterize HLA-associated phosphopeptides from clinical samples that are limited b
160 gated for the enrichment and purification of phosphopeptides from digested protein mixture solutions.
161 affinity capture and identification of 3,908 phosphopeptides from fractionated whole-heart homogenate
165 Several methods were employed for isolating phosphopeptides from proteolytically digested plasma mem
166 ses is carried out for the identification of phosphopeptides from serum digest and HeLa cell extract.
170 otypes comprising 14,165 proteins and 18,405 phosphopeptides (from 4,511 proteins), quantified across
174 d LC-MS/MS were complementary in large-scale phosphopeptide identifications and produced different ph
176 confidence datasets, since information about phosphopeptide identity, site-localization, and quantita
177 However, water molecules interact with the phosphopeptide in the hydrophilic region of the lattice.
181 ed to the determination of glycopeptides and phosphopeptides in clinical specimens, cell lysates, and
183 al of ultra-low flow ESI for the analysis of phosphopeptides in liquid based separation techniques.
184 of phosphoangiotensin and recover 70% of the phosphopeptides in mixtures with a 15-fold excess of non
185 oproteomics to compare the global changes in phosphopeptides in WT and snrk2.2/2.3/2.6 triple mutant
189 at, based on structurally characterized BRCT-phosphopeptide interactions, were presumed critical for
190 ner proteins usually bind via insertion of a phosphopeptide into an amphipathic groove of 14-3-3.
191 on or reactivation affected largely distinct phosphopeptides, introducing a concept of nonoverlapping
194 f-of-concept 10-plex experiment, we compared phosphopeptide levels from five murine brains to five li
195 We have applied FAIMS to the analysis of a phosphopeptide library comprising the sequences GPSGXVpS
196 yme binding and activity with a microarrayed phosphopeptide library printed on chips coated with eith
197 d mutagenesis of NEM1 and SPO7, coupled with phosphopeptide mapping and immunoblotting with a phospho
199 Phosphoamino acid analysis coupled with phosphopeptide mapping of the CKI-phosphorylated Pah1 in
201 ncation analysis, site-directed mutagenesis, phosphopeptide mapping, and phosphoamino acid analysis,
202 s, coupled with phosphorylation analysis and phosphopeptide mapping, to identify Ser-45 and Ser-46 of
203 ion analysis, site-directed mutagenesis, and phosphopeptide mapping, we identified Ser-677, Ser-769,
205 ry identified 14,155 spectra of 3,371 unique phosphopeptides mapping to 1,159 proteins (false discove
207 The major components of the pipeline include phosphopeptide meta-analysis, correlation network analys
208 al challenge to analysis is the formation of phosphopeptide-metal ion complexes during LC which hampe
213 lculated Cscore from a large data set (>7000 phosphopeptide MS/MS spectra) was approximately 32 compa
214 ncy of EV isolation, protein extraction, and phosphopeptide/N-glycopeptide enrichment to achieve sens
215 e of pY-MIP for enrichment and sequencing of phosphopeptides obtained by tryptic digestion of protein
216 iron fortified goat and cow milks and casein phosphopeptides obtained from each species of milk was d
217 itors that disrupt the interaction between a phosphopeptide of SLAM (signaling lymphocytic activation
218 Quantitative phosphoproteomics identified phosphopeptides of increased abundance in hai1-2 in unst
220 identification of over 10,000 unique "basic" phosphopeptides of which many represent putative targets
221 ntially expressed proteins and 11 543 unique phosphopeptides, of which 80% are novel and 7% preferent
222 Polar analytes, including neurotransmitters, phosphopeptides, oligonucleotides, illicit drugs, and ph
225 estigated the thermodynamic properties of 18 phosphopeptides or peptide with phosphate mimic and thre
226 r, methodological limitations (e.g. in MS of phosphopeptides, or antibodies against phosphoepitopes)
231 a search engine that detects and quantifies phosphopeptide positional isomers from parallel reaction
232 strategies, we succeeded in quantifying 1371 phosphopeptides present in the CE-MS data set and found
233 enables the identification of HLA-associated phosphopeptides presented by human tissue samples contai
235 tor interaction between a glycopeptide and a phosphopeptide produces sPGPs that form nanoparticles, w
236 to which phosphate neutral loss occurs from phosphopeptide product ions due to the infrared photoact
237 IRMPD in the top-down analysis of peptides, phosphopeptides, proteins, phosphoproteins, ribonucleopr
239 on interference, we assessed the accuracy of phosphopeptide quantitation across a variety of experime
240 otope-assisted mass spectrometric methods of phosphopeptide quantitation to characterize proteins in
241 ivity is directed to specific substrates via phosphopeptide recognition by its carboxyl-terminal polo
243 richment demonstrates reproducible synthetic phosphopeptide recovery across 2 orders of magnitude, "w
244 d SWATH-MS and benchmarked using a synthetic phosphopeptide reference data set and phosphopeptide-enr
245 ptides showed large sequence homology in the phosphopeptides released by tryptic hydrolysis and simul
247 0.1 fmol and 0.05 fmol for glycopeptides and phosphopeptides, respectively), and good reusability.
249 The comparison showed significantly improved phosphopeptide sensitivity in equal sample load and equa
250 indicate that the FHA domain is a consensus phosphopeptide sensor, and that the ligand for activatio
251 native because CZE and LC are orthogonal for phosphopeptide separation and because the migration time
252 e separation method that produces orthogonal phosphopeptide separation to the widely used LC needs to
254 s in human CD8 T cells imparted high-avidity phosphopeptide-specific recognition and cytotoxic and cy
255 ed a peptide esterification step to increase phosphopeptide specificity from these low-input samples.
256 ow that AI-ETD can identify 24,503 localized phosphopeptide spectral matches enriched from mouse brai
260 limited repeatability and linearity for most phosphopeptides tested, and different phosphopeptides we
261 involved the microinjection of a fluorescent phosphopeptide that is hydrolyzed specifically by PTPs.
262 t TiO2 enrichment does not fully recover the phosphopeptides that are not identified with the corresp
266 es demonstrated that this protocol retrieved phosphopeptides that tend to be smaller (<24 residues),
269 sin-digested tumor samples were enriched for phosphopeptides through immobilized metal ion affinity c
270 ir activities are further enhanced by an RTK phosphopeptide to levels markedly exceeding that of acti
272 s present in the CE-MS data set and found 49 phosphopeptides to be differentially regulated in the tw
273 sphoproteomics requires better separation of phosphopeptides to boost the coverage of the phosphoprot
274 ficient protection against phosphate loss in phosphopeptides upon collision-induced dissociation tand
275 ratio of (18)O- versus (16)O-labeled tryptic phosphopeptide using high mass accuracy mass spectrometr
276 lls with the quantification of 11,266 unique phosphopeptides using multiplexed quantitative mass spec
280 binding affinities of Ga(3+) and Fe(3+) for phosphopeptides, we designed a metal-directed immobilize
281 ized metal affinity chromatography to enrich phosphopeptides, we extracted 849 uniquely identified ph
283 whereas only 10% of 5069 monophosphorylated phosphopeptides were commonly enriched in both fractions
284 PAH and control cells, 170 proteins and 240 phosphopeptides were differentially expressed; of these,
285 de enrichment and purification process, only phosphopeptides were enriched and separated from the oth
286 r most phosphopeptides tested, and different phosphopeptides were found to have different linear rang
288 erties and resolution in MALDI-TOF-MS, these phosphopeptides were identified as suitable markers for
293 quantitations and identifications even from phosphopeptides with a low number of spectral matches.
294 tially phosphorylated proteins (DP) from 350 phosphopeptides with a total of 399 phosphorylated sites
295 th IMAC and TiO2 enriched similar amounts of phosphopeptides with comparable enrichment efficiency.
297 ains challenging, especially for hydrophilic phosphopeptides with enriched regions of serines, threon
298 e present a straightforward method to enrich phosphopeptides with multiple basic residues, an under-r
300 identified and quantified over 13,000 unique phosphopeptides, with a large percentage dependent on Sy