ライフサイエンスコーパス: SID

1 SID can be very useful for quaternary structure studies

2 SID can capture neuronal dynamics in vivo within a volum

3 SID fragmentation patterns of peptides are, in general,

4 SID fragments with the same m/z but different charge sta

5 SID of approximately 100-fmol amounts of model peptides

6 SID provides structural information on noncovalent prote

7 SID reveals similar dissociation patterns over all trapp

8 SID showed clear differences among S. cerevisiae populat

9 SID-1 acts cell-autonomously and is required for cellula

10 SID-1 is expressed in cells sensitive to RNAi, is locali

11 SID-2, when expressed in the environmental RNAi defectiv

12 SID-2-dependent dsRNA transport requires an acidic extra

13 SID-5 is detected in cytoplasmic foci that partially col

14 SID-mSin3A interaction is necessary for the anti-prolife

15 erently than the previously described SID-1, SID-2, and SID-3 proteins, thus expanding the systemic R

16 etween many different tissues via at least 2 SID-1 independent export pathways.

17 Here, we identify systemic RNAi defective-3 (SID-3) as a conserved tyrosine kinase required for the e

18 ity [SID] = 0.984), 51 (SID = 0.95), and 42 (SID = 0.881) types, respectively, among the 85 MRSA isol

19 son's index of diversity [SID] = 0.984), 51 (SID = 0.95), and 42 (SID = 0.881) types, respectively, a

20 n of primary cells, whereas Mnt containing a SID deletion cooperates with Ras in the absence of Myc t

21 uption of Sin3 function by introduction of a SID decoy that interferes with PAH2 binding to SID-conta

22 for the first time that the repression of a SID-containing protein is regulated by signaling rather

23 gers are exported to other tissues through a SID-1-independent mechanism.

24 rity to the well-characterized 13-amino-acid SID of the Mad bHLHZip repressor.

25 Ion mobility is utilized after SID to separate products overlapping in m/z to simplify

26 In this study, an SID device was designed and successfully installed in a

27 n the previously described SID-1, SID-2, and SID-3 proteins, thus expanding the systemic RNAi pathway

28 ted in ion mobility and subjected to CID and SID.

29 that can block interactions between PAH2 and SID-containing proteins offers a targeted epigenetic app

30 hat the correlation between dimethyl-SRM and SID-SRM is within 0.3-33% variation, demonstrating the a

31 The N-terminus and SID equally enhance SR protein turnover by altering the

32 ural substrates for the low social drive and SIDs in schizophrenia.

33 s associated with both negative symptoms and SIDs.

34 ion-level microsatellite profiling approach, SID (Saccharomyces cerevisiae IDentifier), to identify t

35 ndosomal proteins similarly relocalizes both SID-5 and LMP-1::GFP.

36 hat can be obtained for protein complexes by SID.

37 imported from the acidic intestinal lumen by SID-2 via endocytosis and are released from internalized

38 that, when expressed in Drosophila S2 cells, SID-2 enables the uptake of dsRNAs.

39 is elegans have shown that the dsRNA channel SID-1 is required for the import of such transported sil

40 secondary step mediated by the dsRNA channel SID-1.

41 genetically conserved transmembrane channel, SID-1.

42 ey, IUPAC name, KEGG, LipidMaps, PubChem CID+SID, SMILES and chemical synonym names.

43 5-2002 New Jersey State Inpatient Databases (SID) developed as part of the Healthcare Cost and Utiliz

44 zed data from the State Inpatient Databases (SID) for 29-44 US states over a 10-year period (2000-200

45 rom 2009-2012 and State Inpatient Databases (SIDs) from 2008-2014.

46 ength proteins with these mutations decrease SID-1-mediated RNA transport efficiency, providing evide

47 unknown, but smell identification deficits (SIDs) exist in schizophrenia, and olfaction is related t

48 he general "substitution/insertion/deletion (SID) model".

49 We collected data from a single deme (SID) from Northern Australia and from a scattered sampli

50 We introduce seeded iterative demixing (SID), a computational source-extraction technique that e

51 ts differently than the previously described SID-1, SID-2, and SID-3 proteins, thus expanding the sys

52 rpreted in terms of shear-induced diffusion (SID) caused by viscous interactions between particles in

53 with the concept of stable isotope dilution (SID) for metabolite quantitation.

54 metry (MRM-MS) with stable isotope dilution (SID) is increasingly becoming a widely accepted assay fo

55 ross-links based on stable isotope dilution (SID) nanoflow liquid chromatography nanospray ionization

56 rument employs surface-induced dissociation (SID) as an activation method for obtaining structural in

57 monstrate that surface-induced dissociation (SID) coupled with ion mobility mass spectrometry (IM-MS)

58 custom in-line surface-induced dissociation (SID) device has been incorporated into a commercial ion

59 novel in-line surface-induced dissociation (SID) device was designed and implemented in a commercial

60 fragmented by surface-induced dissociation (SID) following trapping.

61 Surface-induced dissociation (SID) has been implemented in a matrix-assisted laser des

62 In contrast, surface-induced dissociation (SID) has been shown to be very effective at dissociating

63 metry studies, surface-induced dissociation (SID) has been successfully applied in quadrupole time-of

64 nergy-resolved surface-induced dissociation (SID) of des-Arg(1)- and des-Arg(9)-bradykinin on a fluor

65 nergy-resolved surface-induced dissociation (SID) of ternary complexes of Co(III)(salen)+, Fe(III)(sa

66 Surface-induced dissociation (SID) of the singly protonated complex of vancomycin anti

67 sequencing by surface-induced dissociation (SID) on a MALDI-ion mobility-orthogonal TOF mass spectro

68 configured for surface-induced dissociation (SID) studies.

69 ples IM-MS and surface-induced dissociation (SID) to dissociate the source-activated precursors of th

70 tramers toward surface-induced dissociation (SID).

71 d a target for surface induced dissociation (SID).

72 cture by cone activation produces a distinct SID spectrum, with the differences observed being conser

73 A resolved 66 (Simpson's index of diversity [SID] = 0.984), 51 (SID = 0.95), and 42 (SID = 0.881) typ

74 a large, nonhomologous spacer insert domain (SID) that bifurcates the kinase domain and anchors the k

75 ad2 through a novel Smad-interacting domain (SID) adjacent to its PDZ domain.

76 that the Mtb RbpA sigma-interacting domain (SID) and basic linker are sufficient for transcription a

77 A Sin3-interacting domain (SID) originally described in Mad proteins is necessary f

78 n via a Mad1-like mSin3A interacting domain (SID).

79 The SAP30 Sin3 interaction domain (SID) binds to PAH3 via a tripartite structural motif, in

80 te motif within the Sin3 interaction domain (SID) comprising a helix and an extended segment.

81 gion related to the Sin3 interaction domain (SID) of Mad proteins.

82 bound together, the Sin3 interaction domain (SID) of Mad1 forms extensive hydrophobic contacts with t

83 The mSin3 interaction domain (SID) of the human MAD1 protein provided moderate repress

84 motif known as the Sin3 interaction domain (SID).

85 cterize the VP5 scaffold interaction domain (SID).

86 acent to the SRA-interacting protein domain (SID), which is the domain of APOL1 that interacts with S

87 alian Sin3A with the transrepression domain (SID) of human Mad1 reveals that both domains undergo mut

88 gh two independent Sin3 interaction domains (SIDs), Pf1SID1 and Pf1SID2.

89 d with patients on standard interval dosing (SID; n=1093) every 4 weeks.

90 2000 eV so that changes to ion energy during SID do not cause major m/z shifts.

91 This new setup allows efficient SID for a broad range of molecules.

92 Here, we show that, in C. elegans, SID-1 is required for efficient silencing of multicopy t

93 ry to the observation time frame of existing SID spectrometers, which are on the order of 10 micros f

94 We expressed SID-1, a transmembrane protein from Caenorhabditis elega

95 rometer (FT-ICR MS) specially configured for SID experiments.

96 s and are larger than a few milliseconds for SID implemented in Fourier transform ion cyclotron reson

97 ver, drastic differences can be observed for SID spectra of different conformations, implying differe

98 amino acids 8-20 of Mad1 are sufficient for SID:PAH2 interaction.

99 Furthermore, SID-5 acts differently than the previously described SID

100 d mSin3 is not only dependent on the helical SID but is also dependent on both putative helices of th

101 We present here SID of a large noncovalent tetradecamer protein, GroEL (

102 the "long indel" model (a space-homogeneous SID model) and the model used by Dawg, a genuine sequenc

103 Here, we show that a human SID-1 orthologue, SIDT1, facilitates rapid, contact-depe

104 The advantage of IM-SID-o-TOF-MS is that a single experiment can be used to

105 ork highlights the potential of utilizing IM-SID to study quaternary structures of protein complexes

106 s and experimental results that implementing SID in a commercial MALDI TOF spectrometer is feasible a

107 rmline requires the dsRNA-selective importer SID-1.

108 nous (exo)-RNAi pathway: the dsRNA importer, SID-1 and the argonaute, RDE-1.

109 served in EID group compared with 4 cases in SID cohort.

110 ; 7% of patients had enhancing T1 lesions in SID compared with 9% in EID (p=0.08); annualised relapse

111 Genetic missense mutations in SID-1 ECD causal for deficient systemic RNAi resulted in

112 average charge states of monomer products in SID of each of these forms are unique.

113 efficient import of dsRNA requires an intact SID-3 kinase domain.

114 te that systemic RNAi in C. elegans involves SID-1-mediated intercellular transport of dsRNA.

115 rom the gut lumen across gut cells that lack SID-1.

116 Unlike the kinase core, the large SID lacks stable, hydrogen-bonded structure and may prov

117 Here, we describe that the Mad1-like SID domain of the Sp1-like repressor TIEG2 is inhibited

118 ucturally and functionally related Mad1-like SID is also present in five Sp1-like repressor proteins

119 11-regulated functions require the Mad1-like SID, indicating that these target genes involved in thes

120 , these results demonstrate that the in-line SID setup is a valid substitute for CID, with potential

121 not have sequence similarity with either Mad SID or Pf1SID1 and therefore represents a novel Sin3 bin

122 hydrophobic residues in the amphipathic Mad1 SID.

123 , we have generated altered-specificity Mad1 SID mutants that bind only to a PAH2 domain with a recip

124 A fusion protein comprising the Mad1 SID linked to a Ga14 DNA binding domain mediates repress

125 sed to a full-length c-Myc protein, the Mad1 SID specifically represses both c-Myc's transcriptional

126 sive mutational analysis to examine the Mad1 SID-mSin3A PAH2 interaction in vitro and in vivo.

127 ntegrity of the PAH1 domain affects the Mad1 SID-PAH2 interaction.

128 First MALDI-SID results in FT-ICR are presented, demonstrating uniqu

129 Here, we show that the mammalian SID-1 ortholog, SIDT2, is required to transport internal

130 thogens by at least two distinct mechanisms: SID antagonists, which include SRA, that interact with t

131 Finally, the minimal SID can function as an autonomous and portable repressio

132 Worms expressing neuronal SID-1 showed RNAi phenotypes when fed with bacteria expr

133 een electrosprayed and analyzed with the new SID setup.

134 phic disease activity was observed in 62% of SID and 61% of EID patients (p=0.83).

135 resented, demonstrating unique advantages of SID over conventional FT-ICR MS ion activation technique

136 ion time point on a potential application of SID for high-throughput studies in FTICR MS.

137 t the identification and characterization of SID-2, an intestinal luminal transmembrane protein requi

138 t the identification and characterization of SID-5, a C. elegans endosome-associated protein that is

139 expressed the extracellular domain (ECD) of SID-1 and purified it to near homogeneity.

140 Heterologous expression of SID-1 in Drosophila Schneider 2 cells enables passive up

141 ing our understanding of how the function of SID-containing repressors may be controlled.

142 The mammalian homolog of SID-3, activated cdc-42-associated kinase (ACK), acts in

143 nctional similarity of mammalian homologs of SID-1 (SIDT1 and SIDT2), we expressed and purified mouse

144 udy illustrates the functional importance of SID-1 ECD as a dsRNA binding domain that contributes to

145 nce of inherited silencing is independent of SID-1 and RDE-1, but requires HRDE-1 and MUT-7.

146 Interpretation of SID spectra for cesium iodide clusters was greatly simpl

147 Upon overexpression of SID-3, cells import dsRNA more efficiently than do wild-

148 lity of LFM, coupled with the performance of SID, will open up a range of applications including clos

149 ve experience with analyzing a wide range of SID-MRM-MS data, we set forth a methodology for analysis

150 gence was independent of the relationship of SID and social drive.

151 mal evolution, but the physiological role of SID-1 and its orthologs remains unclear.

152 These results highlight the utility of SID and IM-MS in resolving conformational heterogeneity

153 the deficit syndrome, but the association of SIDs with diminished social drive explained both relatio

154 the deficit syndrome, but any specificity of SIDs for social dysfunction is unstudied.

155 17% of patients on SID had new T2 lesions compared with 14% in EID (p=0.02)

156 also used phage display to derive an optimal SID, which shows an essentially identical arrangement of

157 mobility (IM) and then dissociated by CID or SID for further structural analysis.

158 terminus of Mad (mSin interaction domain, or SID) and two within the second paired amphipathic helix

159 with Kr uppel-associated box (KRAB), ERD, or SID repressor domains.

160 er (FT-ICR MS) specially equipped to perform SID experiments.

161 er (FT-ICR MS) specially equipped to perform SID experiments.

162 Here we present SID of leucine enkephalin, fibrinopeptide A, melittin, i

163 . elegans apical intestinal membrane protein SID-2 is required in C. elegans for the import of ingest

164 nstrate that an endosome-associated protein, SID-5, promotes the transport of RNAi silencing signals

165 novel small molecule thiocarbazate (PubChem SID 26681509), a potent inhibitor of human cathepsin L (

166 Recombinant purified SID-1 ECD selectively binds dsRNA but not dsDNA in a len

167 resent the crystal structure of the Mtb RbpA-SID in complex with domain 2 of the housekeeping sigma-f

168 the structure allows for a model of the RbpA-SID in the context of a transcription initiation complex

169 Reasonable SID signal was detected in single-scan spectra with tota

170 at is complementary to our recently reported SID-IM approach.

171 rited silencing within the germline requires SID-1, a primary Argonaute RDE-1, a secondary Argonaute

172 eas the import of silencing signals requires SID-1, we found that mobile silencing signals generated

173 Further, this minimal 13-residue SID peptide forms an amphipathic alpha-helix in solution

174 eling of time- and collision-energy-resolved SID data suggests that the competition between proton tr

175 er show using NMR that the mSin3A PAH3-SAP30 SID complex can bind to nucleic acids, hinting at a role

176 tios of 200-500 were obtained in single-scan SID mass spectra of model peptides with acquisition time

177 Thus, the second SID, SID2, is highly structured, and this alpha helix (h

178 cture-function analysis, we identify several SID-2 regions required for this activity, including thre

179 cell-autonomous function, intestine-specific SID-5 expression restored body wall muscle (bwm) target

180 ides coupled to stable isotope dilution-SRM (SID-SRM).

181 Tandem SID mass spectra can be acquired using either a continuo

182 mediated by the Mad protein family and that SID repression is dominant over several distinct transcr

183 It is concluded that SID may contribute to NSC, but that further experiments

184 Specifically, we demonstrate that SID on a diamond surface results in a significantly bett

185 Here, we demonstrate that SID-1 is a multispan transmembrane protein that sensitiz

186 These results demonstrate that SID-containing KLF repressor proteins can inhibit cell g

187 BTEB1, BTEB3 and BTEB4), demonstrating that SID-mSin3A interactions have a wider functional impact o

188 Finally, we find that SID-2-dependent transport is inhibited by drugs that int

189 To test the hypothesis that SID-1 mediates a direct biochemical recognition of RNA m

190 Further analyses revealed that SID-1 enables passive cellular uptake of dsRNA.

191 Previous studies have suggested that SID-1 may serve as an RNA channel, but its precise molec

192 The SID helix is wedged within a deep hydrophobic pocket def

193 The SID spectra were also compared to CID spectra.

194 The SID-FT-ICR platform has been tested with several protein

195 In addition, the SID represses the transcriptional activity of linked VP1

196 requirements for the interaction between the SID and PAH2, we have performed mutagenesis and structur

197 show that a 35-residue region containing the SID represents a dominant repression domain whose activi

198 This phenomenon disrupts the SID-mSin3A interaction and thereby inhibits TIEG2's repr

199 for a nucleolar localization sequence in the SID alphaA helix in targeting the Rpd3L/Sin3L complex fo

200 08); annualised relapse rate was 0.14 in the SID group, and 0.09 in the EID group.

201 However, subtle differences in the SID spectra of the activated complex are also observed a

202 ient to cause substantial differences in the SID spectra of these complexes.

203 Interestingly, the SID decoy was effective in the triple-negative M.D. Ande

204 and residues on the hydrophobic face of the SID helix are required for interaction with PAH2.

205 Mutations that alter the structure of the SID inhibit in vitro interaction between Mad and mSin3 a

206 Given the close proximity of the SID to other functional motifs in Sds3 at the sequence l

207 ed mutagenesis and structural studies on the SID.

208 In particular, the SID decoy led to epigenetic reprogramming and reexpressi

209 products overlapping in m/z to simplify the SID spectra.

210 ino terminus of the Mad proteins, termed the SID, for Sin3 interaction domain, and the second of four

211 Our results indicate that the SID is necessary and sufficient for transcriptional repr

212 DI TOF spectrometer is feasible and that the SID products in this instrument fall in an observation t

213 Here, we show that the SID samples two discrete, substantially populated confor

214 ision energy and the length of time that the SID target is available for collision, two parameters th

215 Therefore, our results suggest that the SID-3/ACK tyrosine kinase acts as a regulator of RNA imp

216 four serine/threonine sites adjacent to the SID.

217 ains to be established, however, whether the SID-mSin3A interaction is constitutive or regulated.

218 s, which include SRA, that interact with the SID of various APOL proteins, and MAD antagonists that i

219 With the SID setup installed, ion transmission proved to be effic

220 The SIDs have been linked with negative symptoms and the def

221 The SIDs were related to negative symptoms and the deficit s

222 This SID nanoLC-NSI/MS/MS assay is highly sensitive and speci

223 liced transcript in human tissues lacks this SID and fails to inhibit TGFbeta responses.

224 cy, providing evidence that dsRNA binding to SID-1 ECD is related to RNA transport.

225 D decoy that interferes with PAH2 binding to SID-containing partner proteins reverted the silencing o

226 tric information for peptide ions (MALDI TOF SID TOF).

227 g the Caenorhabditis elegans RNA transporter SID-1 in neurons to increase the efficacy of RNAi in pri

228 pology, are released from the precursor upon SID, significantly different from the ubiquitous monomer

229 We examined whether SIDs in schizophrenia were related broadly to negative s

230 energy/secondary fragmentation channels with SID.

231 , and high-voltage electronics together with SID spectra of MALDI-generated peptide ions are presente

232 Without SID-3, cells perform RNA silencing well but import dsRNA