ライフサイエンスコーパス: deamidation

1 n as a result of stress (e.g., oxidation and deamidation).

2 consistent with predictions (pI 7.0 for one deamidation).

3 activation through amidotransferase-mediated deamidation.

4 id (Asp) isomerization, and asparagine (Asn) deamidation.

5 nate mononucleotide suggests a mechanism for deamidation.

6 ll as other stimuli can increase the rate of deamidation.

7 s in overestimation of the original level of deamidation.

8 investigating the structural consequences of deamidation.

9 th this to determine the extent of glutamine deamidation.

10 ound to increase linearly with the extent of deamidation.

11 of the rate-limiting elementary step of Asn deamidation.

12 vels of covalent damage, including glutamine deamidation.

13 ylation, glycosylation, phosphorylation, and deamidation.

14 ead-based approaches may increase artificial deamidation.

15 MTN1 and MTN2 as putative targets of HopAF1 deamidation.

16 ese residues are potential targets of HopAF1 deamidation.

17 We find that deamidation accelerates amyloid formation and the deamid

18 e these asparagines with aspartate (to mimic deamidation) according to their predicted deamidation ra

19 atalytic residue for both ubiquitination and deamidation activities.

20 the molecular mechanism by which Nedd8 Gln40 deamidation affects CRL functions remains unclear.

21 ntial processes, provide the 0 K barrier for deamidation after accounting for unimolecular decay rate

22 In summary, the data suggested that the deamidation alone showed greater effect on chaperone act

23 e of the study was to compare the effects of deamidation alone, truncation alone, or both truncation

24 Deamidation altered amine reactivity, circular dichroism

25 We hypothesize that N325 deamidation altered the local three-dimensional structur

26 either aspartyl isomerization or asparaginyl deamidation alters protein structure and potentially bio

27 underwent both methylation and demethylation/deamidation, although detection of the latter modificati

28 DNA damage and consequently represses Bcl-xL deamidation and apoptosis, thus giving rise to inappropr

29 ugh understanding of the criticality of N325 deamidation and appropriate monitoring can help ensure t

30 Unlike Met oxidation, Asn deamidation and Asp isomerization mostly had very limite

31 spartyl/isoaspartyl products produced by Asn deamidation and Asp isomerization.

32 Asparagine deamidation and aspartate isomerization were identified

33 biochemical inhibition of PFAS impair RIG-I deamidation and concomitant activation.

34 We show that the glutamine (Gln) deamidation and cysteine (Cys) oxidation branches are bo

35 Moreover, deamidation and dehydration occur not only during cycliz

36 Deamidation and isomerization are known to be among the

37 dation resulted from three different events, deamidation and isomerization at asparagine 317 (Asn317)

38 n of the acidic variants can be explained by deamidation and isomerization, suggesting that additiona

39 phosphorylation and feedback control through deamidation and methylation of sensory receptors.

40 artificial modifications such as asparagine deamidation and N-terminal glutamine cyclization on prot

41 Subtle differences of modifications such as deamidation and oxidation between the innovator and bios

42 ergo chemical changes such as lactosylation, deamidation and protein cross-linking during processing

43 Lactosylation, deamidation and protein cross-linking were observed on 2

44 Charge species due to deamidation and sialylation were separated by CZE.

45 we incorporated the role of CheB in receptor deamidation and the slow fluctuations in receptor methyl

46 The inherent deamidation and those introduced by sample preparation c

47 maintenance of chaperone activity following deamidation and/or deletion of the N-terminal domain or

48 ned higher degrees of damage (carbonylation, deamidation) and far less IE.

49 in protein therapeutics (e.g., oxidation and deamidation) and its complex glycosylation profile.

50 soform 1 (NHE-1), intracellular pH, Bcl-x(L) deamidation, and apoptosis.

51 mposition data, lack of evidence for peptide deamidation, and association of alpha1(I) collagen seque

52 s allowing various PTMs including oxidation, deamidation, and isomerization located in the complement

53 The levels of oxidation, deamidation, and mutation of individual amino acids were

54 Including acetylation, phosphorylation, deamidation, and oxidized forms, a total of 8106 modifie

55 to determine PTM levels including oxidation, deamidation, and succinimide formation by online peptide

56 s study, methionine oxidation and asparagine deamidation are the only two modifications identified in

57 try (MS/MS) was established to calculate the deamidation artifacts.

58 used for the determination of the extent of deamidation as a measure of the amount of amide nitrogen

59 hionine loss with the relative amount of the deamidation, as well as the level of deamidation with gl

60 alysis retrieved terminal ions, suggesting a deamidation at a NN motif for a LC+1 Da species, and inc

61 When simulating deamidation at both residues, there was a further decrea

62 f different extents of oxidation at M207 and deamidation at N184, which could influence the clot lysi

63 additional attributes, such as oxidation and deamidation at specific sites in parallel to the site-sp

64 method is needed to determine the extent of deamidation at the whole protein level.

65 oxidation-induced structural changes foster deamidation at this site.

66 previously shown that human Bcl-xL undergoes deamidation at two asparaginyl residues and that DNA-dam

67 tion, the oxidized Fc displayed an increased deamidation (at pH 7.4) rate at the Asn 67 and Asn 96 si

68 Optimal conditions of PG deamidation based on reaching a high degree of deamidati

69 l of human Bcl-xL is constantly modulated by deamidation because deamidation, like phosphorylation in

70 nusually large number of modifications, with deamidation being a major factor.

71 Heat treatment resulted in significant deamidation but almost no oxidation, which is consistent

72 elation between age of samples and levels of deamidation, but highlighting the effect of local enviro

73 Gluten deamidation by human tissue transglutaminase is critical

74 aviour was primarily attributed to glutamine deamidation by microbial transglutaminase in the absence

75 d-assisted alkaline extraction and enzymatic deamidation by PG have great potential to produce edible

76 d-assisted alkaline extraction and enzymatic deamidation by protein-glutaminase (PG) on evening primr

77 peptides from ingested cereals, after their deamidation by TG2, induce T-lymphocyte activation accom

78 rpose of this study was to determine whether deamidation can alter clearance of crystallins by the UP

79 Deamidation can influence the structure, stability, fold

80 ase Dcn1, our data are consistent with NEDD8 deamidation causing enhanced deneddylation of cullins by

81 t additional alpha-helix probably induced by deamidation, compared to the human and bovine counterpar

82 des, often the autocatalytic nucleophiles in deamidation, correlated with the rate of degradation.

83 Deamidation creates a new intramolecular salt-bridge in

84 amidation based on reaching a high degree of deamidation (DD) with a simultaneously low degree of hyd

85 These data indicate that interface deamidation decreases the thermodynamic stability of Hga

86 18)O, the formation of isoAsp and Asp by Asn deamidation during sample preparation results in a molec

87 e first time gamma/alpha-glutamyl isomers of deamidation, encountering a 1.7 gamma/alpha-glutamyl rat

88 stallizable fragment (Fc) modification, N325 deamidation, exhibited a positive correlation with the l

89 Furthermore, gluten peptide deamidation extended the T-cell-receptor repertoire by r

90 The deamidation followed by subsequent methyl esterification

91 xin has a preferred enzymatic activity (i.e. deamidation for CNF1 and transglutamination for DNT) as

92 of post-translational modifications such as deamidation for this protein is challenging.

93 Uncoupling RIG-I deamidation from HSV-1 infection, by engineering deamida

94 The measured deamidation half-life for three different tryptic peptid

95 uence and biochemical data that suggest that deamidation has been conserved from the simplest extant

96 Protein deamidation has been considered a nonenzymatic process a

97 ovine ribonuclease A (13,689 Da), only Asn67 deamidation has been demonstrated previously, although o

98 Deamidation has been detected at the domain and monomer

99 asparagine (Asn), studies on glutamine (Gln) deamidation have been scarce, especially on the differen

100 ble residues but other modifications such as deamidation have been scarcely reported in the literatur

101 9) that are predicted to undergo significant deamidation (i.e., to >20%) on time scales comparable to

102 to elucidate the biological implications of deamidation in aging and disease conditions.

103 ith a total of 277 and 282 sequences showing deamidation in both muscles, respectively.

104 To test this, we predicted sites of deamidation in cartilage oligomeric matrix protein (COMP

105 rk shows a method to determine the extent of deamidation in collagen using Fourier transform ion cycl

106 NGR deamidation in Cp was associated with gain of integrin-b

107 nt questions concerning the roles of protein deamidation in infection and immunity.

108 Here, we review studies on protein deamidation in innate immune signaling and present sever

109 Despite technological advances, detection of deamidation in large proteins remains a challenge and th

110 trometry techniques we identified asparagine deamidation in light chain complementarity determining r

111 motif in a structural loop, this is prone to deamidation in one of the antibodies but not the other.

112 The sites and levels of Asn deamidation in proteins are often determined by LC-MS an

113 or "aging." Recent studies implicate protein deamidation in regulating signal transduction in fundame

114 The precise role of deamidation in silencing the UBC13/TRAF6 complex is unkn

115 uctural models of amylin fibers reveals that deamidation in the N-terminal beta-sheet region may be t

116 t a full molecular description of asparagine deamidation in the Na(+)(Asn) complex by studying its co

117 This work has been focused on the impact of deamidation in those peptides generated in 12-months dry

118 ht mass spectrometry (MALDI-TOF-MS) to study deamidation in wool textiles, we identified eight peptid

119 metry (nanoLC-ESI-MS/MS) data indicated that deamidation in wool's alpha-keratin was influenced by pr

120 ing aggregation, average DAR, oxidation, and deamidation, in a 2 h run.

121 lecules may be partially due to a process of deamidation independent of glycosylation.

122 RhoA deamidation induces caspase-1 inflammasome activation, w

123 We report that deamidation inhibits the interaction between UBC13 and T

124 e of its impact on biological activity, N325 deamidation is a critical quality attribute for products

125 Deamidation is a major degradation pathway for all natur

126 Thus, deamidation is a post-translational modification that cr

127 in why the same enzyme that catalyzes gluten deamidation is also an autoantigen, something that is ha

128 Protein deamidation is emerging as a post-translational modifica

129 wn tandem mass spectrometry shows that Asn67 deamidation is extensive before Asn71 and Asn94 react; t

130 half deamidated before Asn34 reacts, and its deamidation is extensive before that at Gln74 is initiat

131 It appears that deamidation is not influenced by the type of muscle but

132 Deamidation is the irreversible substitution of an amide

133 Deamidation is very difficult to detect with standard me

134 Deamidation is, nonetheless, chemically equivalent to As

135 acid (Asp) isomerization or asparagine (Asn) deamidation, isoaspartic acid (isoAsp, isoD, or beta-Asp

136 digestions and used to monitor site-specific deamidation, isomerization, and other chemical modificat

137 s, including biotransformation via clipping, deamidation, isomerization, oxidation, etc.

138 Deamidation-isomerization to iso-Asp317, but not deamida

139 Moreover, we found that deamidation kinetics between in vivo samples and samples

140 was confirmed upon mutation to stabilize the deamidation lability via a generally applicable orthogon

141 Deamidation leads to disruption of the N-terminal beta-s

142 Therefore, it is necessary to monitor the deamidation levels [during storage] and after in vivo ad

143 ol samples buried for up to 8 years in which deamidation levels were relatively low under short-term

144 constantly modulated by deamidation because deamidation, like phosphorylation in other proteins, act

145 Thus deamidation, like phosphorylation, introduces a negative

146 oAsp) sites in peptides and proteins via the deamidation-linked isomerization of asparaginyl-Xaa bond

147 profiles are obtained, and the abundance of deamidation-linked racemization is examined.

148 Despite the importance of deamidation, little is known about the elementary reacti

149 viral deamidase and extends the paradigm of deamidation-mediated suppression of innate immunity by m

150 The deamidation-methyl esterification products are greatly e

151 Similarly, the deamidation mutants lowered the kinetic barrier to unfol

152 Compared with wild type, the deamidation mutants were destabilized at pH 7.0.

153 m unfolding transitions of wild type and the deamidation mutants were indistinguishable.

154 litates detection of PTMs such as oxidation, deamidation, N-terminal pyroglutamic acid formation, and

155 dentify the gamma/alpha-glutamyl products of deamidation, none of these methods allows the characteri

156 Dissociative deamidation occurs along the N-C(alpha) bond, resulting

157 Asparagine deamidation occurs spontaneously in proteins during agin

158 n to activate several signaling pathways via deamidation of a conserved glutamine residue in the alph

159 onstitutively activates small Rho GTPases by deamidation of a conserved glutamine residue, and HlyA1

160 activate small GTPases of the Rho family by deamidation of a glutamine, which is crucial for GTP hyd

161 rm, we successfully quantified the levels of deamidation of a humanized monoclonal antibody in cynomo

162 ion of a mAb, (ii) quantifying the extent of deamidation of a mAb, (iii) providing charge variant inf

163 e with the host cell cycle by catalyzing the deamidation of a specific glutamine residue (Gln40) in N

164 These 1,014-amino-acid toxins catalyze the deamidation of a specific glutamine residue in RhoA, Rac

165 generated a transgenic mouse model mimicking deamidation of Asn at position 101.

166 We show that deamidation of Asn to Asp is dependent on glycosylation

167 Carbohydrate removal results in deamidation of Asn(371) to aspartic acid.

168 curs spontaneously in proteins during aging; deamidation of Asn-Gly-Arg (NGR) sites can lead to the f

169 The deamidation of asparagine (Asn) residues is the most com

170 Deamidation of asparagine and glutamine is the most comm

171 sed in ammonia as well as constant rates for deamidation of asparagine in collagen.

172 soAsp, isoD, or beta-Asp), generated via the deamidation of asparagine or isomerization of aspartic a

173 lts from this study suggest that spontaneous deamidation of asparagine residues predicted to occur du

174 ere investigated, with five derived from the deamidation of asparagine that were confirmed to contrib

175 The deamidation of asparagine--an analytically elusive, sub-

176 Nonenzymatic deamidation of asparaginyl residues can occur spontaneou

177 of proteins and peptides is the spontaneous deamidation of asparaginyl residues via a succinimide in

178 investigated the effect of oxidation on the deamidation of both NGR motifs and, consequently, on the

179 d for age assessment, it has been shown that deamidation of collagen is remarkably increased in old b

180 Deamidation of crystallins is associated with protein pr

181 metry data on the in vitro extracts revealed deamidation of cy-2-glu in prostate and liver cells, sug

182 probe in the form of free cypate, indicating deamidation of cy-2-glu in tissues.

183 T-induced mTORC1 activation proceeds via the deamidation of Galpha(q/11), which leads to the activati

184 Deamidation of glutamine (Gln) residues is a spontaneous

185 d in our discussion of human disease include deamidation of glutamine (Gln) residues, amine incorpora

186 Deamidation of glutamine (Q) and asparagine (N) has been

187 The deamidation of glutamine (Q) to glutamic acid (E) result

188 cein-HPHQ(10)RR, and mass accuracy rules out deamidation of glutamine to glutamic acid as an explanat

189 BPSL1549 promotes deamidation of glutamine-339 of the translation initiati

190 In addition, the enzyme is responsible for deamidation of gluten peptides, which are subsequently t

191 taminase 2 (TG2) catalyzes transamidation or deamidation of its substrates and is ordinarily maintain

192 ficient homologues (pseudoenzymes) to induce deamidation of key signaling components and evade host i

193 heD plays an important role in chemotaxis by deamidation of methyl-accepting chemotaxis protein recep

194 Deamidation of N-terminal Gln by Nt(Q)-amidase, an N-ter

195 Deamidation of N-terminal Gln by the Ntaq1 Nt(Q)-amidase

196 ate that is targeted for degradation through deamidation of N-terminal Gln.

197 ing residues and steric hindrance preventing deamidation of N.

198 n chaperone activity in homomers occurred on deamidation of N123 residue, but it was substantially re

199 for example, Nt-Asn, its targeting involves deamidation of Nt-Asn, arginylation of resulting Nt-Asp,

200 Specifically, the study investigated whether deamidation of one or two sites in alphaA-crystallin (i.

201 e immunogenic to adults with celiac disease; deamidation of peptides increased these responses.

202 we show that Dop is not only involved in the deamidation of Pup, but also needed to maintain wild-typ

203 an emergency situation; however, spontaneous deamidation of purified vaccine antigens has the potenti

204 In order to explore whether spontaneous deamidation of recombinant protective antigen (rPA)--the

205 first time that, like mild oxidative stress, deamidation of some proteins makes them preferred substr

206 nly known biologically relevant function was deamidation of the anticancer drug bleomycin.

207 ed for quantitatively monitoring the in vivo deamidation of the biopharmaceutical monoclonal antibody

208 ted ELISA method for trastuzumab showed that deamidation of the drug at the CDR leads to a loss of re

209 oxidation of the same methionine residue and deamidation of the same asparagine in the corresponding

210 used as a method to predict the liability to deamidation of therapeutic antibodies in vivo.

211 Deamidation of therapeutic antibodies may result in decr

212 ein via the carboxyl-terminal glutamine with deamidation of this residue.

213 Deamidation of trastuzumab was observed in plasma both i

214 used to perform an in-depth study of protein deamidation on a global proteome scale.

215 25/Q were made to confirm the effect of N325 deamidation on ADCC.

216 no structural studies of the consequences of deamidation on amyloid fibers, in large part because of

217 The effect of deamidation on camel alpha-lactalbumin instability was i

218 Predominance of deamidation on glutamine rather than asparagine in the a

219 investigated, and the biophysical effects of deamidation on SOD1 are unknown.

220 ne, truncation alone, or both truncation and deamidation on structural and functional properties of h

221 Here we examine the effects of deamidation on the kinetics of amyloid formation by amyl

222 known protein that can undergo nonenzymatic deamidation on two Asn residues.

223 ains of isoAsp or Asp; in contrast, inherent deamidation only results in a molecular weight increase

224 fication arising from spontaneous asparagine deamidation or aspartate isomerization.

225 ll as faint modifications such as asparagine deamidation or aspartic acid isomerization.

226 in digestion method, little protocol-induced deamidation or N-terminal glutamine cyclization product

227 Undesired side reactions, such as deamidation or peptide hydrolysis, occur only at a very

228 undergo biotransformation (such as clipping, deamidation, or oxidation) in vivo, resulting in catabol

229 pupylated proteins results in preferred Pup deamidation over protein depupylation by this enzyme.

230 e post-translational modifications including deamidation, oxidation, glycosylation variants, and frag

231 BCR-ABL and mutant JAK2 inhibit the Bcl-x(L) deamidation pathway and the apoptotic response to DNA da

232 ssing JAK2V617F compromises the NHE-1/Bcl-xL deamidation pathway by repressing NHE-1 upregulation in

233 r abnormalities of the proapoptotic Bcl-x(L) deamidation pathway in primary cells from patients with

234 The Bcl-x(L) deamidation pathway was inhibited in myeloid cells, but

235 domain or C-terminal extension and also with deamidation plus above N- or C-terminal deletions.

236 At neutral to basic pH, deamidation proceeds by the initial formation of a tetra

237 usceptibility to thermolysin showed that the deamidation process reinforced the structural stability

238 Although differentiation of the isomeric Asn deamidation products (Asp and isoAsp) at the peptide lev

239 efficiency with a minimal (<1%) formation of deamidation products during digestion.

240 ltaneously separate Gln and asparagine (Asn) deamidation products even for those peptides showing mul

241 rge) overestimation of the concentrations of deamidation products in the original plasma sample.

242 be used to generate diagnostic ions for the deamidation products of Asn: aspartic acid (Asp) and iso

243 1.7 gamma/alpha-glutamyl ratio for most Gln deamidation products.

244 ially on the differentiation of its isomeric deamidation products: alpha- and gamma-glutamic acid (Gl

245 ing site-directed mutagenesis to replace six deamidation-prone asparagine residues, at positions 408,

246 Here, the linkage between deamidation propensity and structural dynamics is invest

247 Due to its much slower deamidation rate compared to that of asparagine (Asn), s

248 ic deamidation) according to their predicted deamidation rate, yielding: N26D, N26D/N131D, and N26D/N

249 both located on the C(H)2 domain, while the deamidation rates of the other residues were not affecte

250 te analogous to that proposed for asparagine deamidation reactions potentially can contribute, and in

251 Our findings strongly suggest that deamidation-regulated Bcl-xL degradation is an important

252 isomerization (and the isomeric products of deamidation) remain exceptionally challenging to charact

253 Deamidation rendered RIG-I unable to sense viral dsRNA,

254 lational modifications such as oxidation and deamidation, residual leader sequence, and proteolytic c

255 idation from HSV-1 infection, by engineering deamidation-resistant RIG-I or introducing deamidase-def

256 uction; loss of RIG-I or inhibition of RIG-I deamidation results in elevated cytokine production.

257 Deamidation results in the replacement of asparginyl res

258 n: a stable signature peptide (FTISADTSK), a deamidation-sensitive signature peptide (IYPTNGYTR), its

259 to proline as diagnostic ions to confirm the deamidation site.

260 values showed variable results based on the deamidation site.

261 Peptides with deamidation sites at asparagine residues but lacking a t

262 as to determine the effects of two potential deamidation sites at the predicted interface of the beta

263 the 2 Da molecular weight difference at the deamidation sites can only be used to differentiate deam

264 Of the three deamidation sites identified in the aged beta(2)M, isoAs

265 etry has greatly aided the identification of deamidation sites in proteomic studies, isomerization (a

266 e glutamine residues at the reported in vivo deamidation sites of Q180 in the C-terminal domain and a

267 IsoAsp formation at all three deamidation sites was successfully identified by this CA

268 By preparing the acid- and base-catalyzed deamidation standards in H2(18)O, isomer-specific mass t

269 er gluten's structure, digestibility and the deamidation state of six immunogenic gluten peptides wit

270 to bread (0-2000 U.kg(-1)) did not alter the deamidation state or digestibility of the immunogenic pe

271 Furthermore, two novel deamidation steps leading to nicotinic acid mononucleoti

272 intermediate reaction species for Na(+)(Asn) deamidation, structures that are further optimized at th

273 Here, a comprehensive top-down deamidation study is presented using the protein beta2-m

274 of at least 18 glycoforms, plus a variety of deamidation, succinimide, and oxidation products, repres

275 It thereby provides a link between gluten deamidation, T cell activation, and the production of TG

276 algorithm is used to determine the extent of deamidation that gives the best fit to the measured dist

277 b ions were used for the calculation of Asn deamidation that occurred prior to or during sample prep

278 However, deamidation that occurs during sample preparation steps

279 tion sites can only be used to differentiate deamidation that occurs prior to or during sample prepar

280 Asn(16) and Asn(45) underwent a nonenzymatic deamidation, the sequence Asn(45)-Gly(46) being deamidat

281 ll mass change of the eluting species (e.g., deamidation), this task can be completed using online to

282 idation-isomerization to iso-Asp317, but not deamidation to Asp317, resulted in altered retention tim

283 Gluten proteins can be modified by deamidation to enhance their solubility and technologica

284 Analysis of potential sites of deamidation together with structural models of amylin fi

285 characterizing the isomeric products of Gln deamidation using diagnostic fragments that are abundant

286 w-cost, high-throughput method for assessing deamidation using matrix-assisted laser desorption/ioniz

287 nd showed little relationship to the site of deamidation using N157D and Q204E mutants.

288 Deamidation was confirmed for 28 peptides (90%).

289 For each chosen peptide, the extent of deamidation was determined by comparing the calculated t

290 In contrast, deamidation was higher in archeological textile fragment

291 Rapid in vitro deamidation was observed at higher pH, leading to a (lar

292 Variations in the levels of deamidation were observed between peptides and in modern

293 cific modifications (e.g., M-oxidation and N-deamidation) were identified and quantified.

294 d to HLA-DQ8cis and six to HLA-DQ8trans upon deamidation, whereas all other peptides bound equally to

295 relatively poorly understood, and asparagine deamidation, which has been more thoroughly studied.

296 by TG2-reactive B cells directly to peptide deamidation, which is necessary for the activation of gl

297 Finally, comparisons are made between Gln deamidation, which is relatively poorly understood, and

298 tein dynamics that favor transamidation over deamidation, while revealing a crucial role for the stru

299 patients, but not in control CSF, causes Cp deamidation with gain of integrin-binding function, sugg

300 of the deamidation, as well as the level of deamidation with glycan structure.