ライフサイエンスコーパス: HTH

1 HTH binds to DNA as part of a HTH/Hox/EXD trimeric compl

2 HTH is a member of a small gene family in Arabidopsis an

3 HTH-POA slice ATP levels remained steady for 2, 4 and 6

4 identify a histidine-containing motif ((398)HTH) in the first extracellular loop that is required fo

5 These findings suggest that (398)HTH is an important zinc-sensing motif for eliciting hig

6 Seven other proteins containing a HTH motif, do not have operator-like sequences in the DN

7 Disruption of a gene encoding a HTH-Xre-like regulator, highly expressed in yellow varia

8 s that the catalytic tyrosine is placed in a HTH domain as well.

9 e sulfenic acid oxidation of a cysteine in a HTH-motif leads to differential effects on gene expressi

10 incorporation of a metal-binding loop into a HTH sequence.

11 HTH binds to DNA as part of a HTH/Hox/EXD trimeric complex, and we show that this comp

12 The protein sequence shows a HTH motif typical of that found in many transcriptional

13 d wild type DNA-binding activity, an altered HTH-3 domain resulted in reduced binding to the three pr

14 Although HTH-1 and HTH-2 mutations showed wild type DNA-binding a

15 educed binding to the three promoters and an HTH-4 mutant was devoid of detectable binding activity.

16 fence; transcription is then repressed by an HTH-domain-containing anti-CRISPR-associated (Aca) prote

17 edicted to be in the recognition helix of an HTH motif, was challenged with altered att sites created

18 a putative transcriptional regulator with an HTH DNA binding motif.

19 y diversity for DNA-binding proteins with an HTH motif, and much smaller diversity for those with an

20 ese variables detect 78% of proteins with an HTH motif, which is a substantial improvement over previ

21 Although HTH-1 and HTH-2 mutations showed wild type DNA-binding activity, a

22 tational analyses showed that both CMD-1 and HTH-4 are also necessary for activation of the promoter

23 ae subsp. dysgalactiae showed that CMD-1 and HTH-4 are critical for transcriptional activation in thi

24 Plasmid-encoded expression of the HTH-3 and HTH-4 alleles from a constitutive promoter (Pspac) in th

25 Single-copy expression of HTH-3 and HTH-4 from their native Pmga resulted in a dramatic redu

26 o contain two DNA-binding domains (HTH-3 and HTH-4) that are required for direct activation of the Mg

27 mino-terminal DNA-binding domains (HTH-3 and HTH-4).

28 itional MELK inhibitors, NVS-MELK8a (8a) and HTH-01-091.

29 protein-protein interaction between EXD and HTH results in EXD's nuclear translocation.

30 d the homeodomain (HD), made up from another HTH motif.

31 The majority of the archaeal HTH-containing proteins are predicted to be gene/operon-

32 sequences are much more similar to bacterial HTH domains than to eukaryotic ones, such as the PAIRED,

33 Because HTH domains can mediate protein-DNA interactions, we hyp

34 ytR deletion mutants lacking the DNA binding HTH domain, with tandem CRP dimers bound to either udpP

35 al transduction domains, or with DNA-binding HTH domains.

36 by itself, so it may be that the DNA-binding HTH motif becomes rigidly defined only when FlhD forms a

37 effector domain and a C-terminal DNA-binding HTH-like domain.

38 ed together for the detection of DNA-binding HTHs in proteins of unknown function.

39 ssay using Hsp27 promoter revealed that both HTH domains contribute in a cooperative manner to the tr

40 there is a reciprocal repression exerted by HTH on these and other DPP and WG downstream targets tha

41 lices mediate dimerization, making canonical HTH-DNA interactions impossible.

42 motif contacts DNA similarly to how certain HTH proteins contact DNA non-specifically.

43 MBF1 is the only highly conserved, classical HTH domain that is vertically inherited in all archaea a

44 layed in a ring, distinct from the classical HTH dimer.

45 The 28-mer Cu-HTH peptide P7 spectroscopically mimics the PrP octarepe

46 ntral catalytic domain is intact, PspF delta HTH at physiological concentration cannot activate psp e

47 , multicopy-plasmid-borne PspF or PspF delta HTH overcomes repression of the psp operon mediated by t

48 877) encodes a truncated protein (PspF delta HTH) that lacks the DNA-binding helix-turn-helix (HTH) m

49 o similarity beyond the presence of distinct HTH domains.

50 appears to contain two DNA-binding domains (HTH-3 and HTH-4) that are required for direct activation

51 are two amino-terminal DNA-binding domains (HTH-3 and HTH-4).

52 helix 6, the recognition helices of the dual HTH motifs, are important to DNA binding and transcripti

53 mation in solution, characterized by dynamic HTHs that move around an oligomerization core, generatin

54 helix (helix E) of the helix D-turn-helix E (HTH) DNA-binding domain of the three holo-repressors.

55 Altogether, we postulate the E2(HTH) motif evolved to provide new functionalities that c

56 Interestingly, the E2(HTH) motif is repurposed in UBE2S and UBE2R2 to interact

57 Each HTH motif can bind to DNA separately or in combination w

58 One helix from each HTH motif inserts into the major groove of the DNA to ma

59 g motifs, and it has been proposed that each HTH motif recognizes a highly conserved recognition elem

60 he GnC in site 1 and recognized by the first HTH motif of an ExsA monomer.

61 ate that residues L198 and T199 in the first HTH motif of ExsA contact the guanine in the GnC sequenc

62 haS-CTD substitutions clustered in the first HTH motif, and suggested that l-rhamnose induces improve

63 nce and that residue K202, also in the first HTH motif, contacts the cytosine.

64 Neurons from HTH-POA slices incubated for 4 h appeared healthy and de

65 protein structures that include a functional HTH motif and have no apparent sequence similarity to ea

66 inst a previously proposed helix-turn-helix (HTH) binding site located in another region of the monom

67 the marginally stable lacI helix-turn-helix (HTH) DNA binding domain using circular dichroism and wit

68 links LOV regulation to a helix-turn-helix (HTH) DNA binding domain, we demonstrated that the LOV do

69 ne half of a tra box via a helix-turn-helix (HTH) DNA binding motif.

70 hat only one of Rob's dual helix-turn-helix (HTH) DNA binding motifs binds a recognition element of t

71 AraC proteins contain two helix-turn-helix (HTH) DNA binding motifs.

72 terminal half of EspR is a helix-turn-helix (HTH) DNA-binding domain and the carboxy terminus consist

73 nker identified a putative helix-turn-helix (HTH) DNA-binding domain.

74 of proteins containing the helix-turn-helix (HTH) DNA-binding domains whose sequences are much more s

75 alpha-helices, including a helix-turn-helix (HTH) DNA-binding motif formed by helices 3 and 4, and ca

76 that lack one helix of the helix-turn-helix (HTH) DNA-binding motif or the entire motif retain residu

77 ne regulatory protein with helix-turn-helix (HTH) DNA-binding motif, GalS contains a functional opera

78 ally recognized by the two helix-turn-helix (HTH) DNA-binding motifs of an ExsA monomer.

79 ily, SoxS has two putative helix-turn-helix (HTH) DNA-binding motifs, and it has been proposed that e

80 ors whose hallmark is dual helix-turn-helix (HTH) DNA-binding motifs.

81 that contains a classical helix-turn-helix (HTH) domain and can be assigned to the Xre family of tra

82 It is thought to have a helix-turn-helix (HTH) domain at the N-terminus and possesses two CXXC mot

83 ng subfamily of the winged helix-turn-helix (HTH) domain family whose members share a remarkable abil

84 ts and frequently involves helix-turn-helix (HTH) domain proteins(1).

85 d to contain an N-terminal helix-turn-helix (HTH) domain.

86 ) domain, and a C-terminal helix-turn-helix (HTH) domain.

87 terminus), and a potential helix-turn-helix (HTH) domain.

88 of the proteins containing helix-turn-helix (HTH) domains, which are frequently found in prokaryotic

89 of DNA is recognized by a helix-turn-helix (HTH) motif and the adjacent minor grooves are contacted

90 r37/Pro39 of the repressor helix-turn-helix (HTH) motif and the methyl groups of specific thymine bas

91 is of peptides with hybrid helix-turn-helix (HTH) motif and their conformational analysis (NMR, MD, a

92 The helix-turn-helix (HTH) motif features frequently in protein DNA-binding as

93 inding domain folds into a helix-turn-helix (HTH) motif flanked on either side by "wings" of polypept

94 id sequence similar to the helix-turn-helix (HTH) motif found in other DNA-binding proteins.

95 tection of the DNA-binding helix-turn-helix (HTH) motif from sequence.

96 containing the DNA-binding helix-turn-helix (HTH) motif has been developed.

97 ed mutagenesis of the AmpR helix-turn-helix (HTH) motif identified residues critical for binding and

98 the active site motif to a helix-turn-helix (HTH) motif implicated in DNA binding.

99 sembling the characterized helix-turn-helix (HTH) motif involved in DNA recognition by many phage and

100 bound to site 1, the first helix-turn-helix (HTH) motif of ExsA interacts with the conserved GnC sequ

101 ructural similarity to the helix-turn-helix (HTH) motif of the lambda repressor DNA-binding domain.

102 Here, we demonstrate the helix-turn-helix (HTH) motif of the UBC tunes the intrinsic polyubiquitina

103 binding domain and a 57-aa helix-turn-helix (HTH) motif that is structurally related to the transcrip

104 ns, CodY appears to have a helix-turn-helix (HTH) motif thought to be critical for interaction with D

105 e-binding (OB) folds and a helix-turn-helix (HTH) motif.

106 mily, including a putative helix-turn-helix (HTH) motif.

107 sts a classic DNA-binding, helix-turn-helix (HTH) motif.

108 that lacks the DNA-binding helix-turn-helix (HTH) motif.

109 20 which is located in the helix-turn-helix (HTH) motif.

110 twined dimer with a winged helix-turn-helix (HTH) motif.

111 n the putative DNA-binding helix-turn-helix (HTH) motif.

112 a cos phage, reveals nine helix-turn-helix (HTH) motifs asymmetrically arranged around a beta-strand

113 DNA using small contiguous helix-turn-helix (HTH) motifs comprise a significant number of all DNA-bin

114 The two helix-turn-helix (HTH) motifs in Int proteins incorporate catalytic residu

115 between the marbox and two helix-turn-helix (HTH) motifs on the monomeric MarA.

116 bp target sites using two helix-turn-helix (HTH) motifs that are both located in its C-terminal doma

117 he AraC family contain two helix-turn-helix (HTH) motifs that contact two segments of the DNA major g

118 metries of the EF-hand and helix-turn-helix (HTH) motifs was investigated by NMR and CD spectroscopy

119 domain (PD), which has two helix-turn-helix (HTH) motifs, and the homeodomain (HD), made up from anot

120 ing domain composed of two helix-turn-helix (HTH) motifs,the PAI and RED domains.

121 that the marginally stable helix-turn-helix (HTH) recognition element is greatly stabilized by operat

122 stitutions in two putative helix-turn-helix (HTH) recognition helices that caused differential promot

123 t a peptide derived from a helix-turn-helix (HTH) region of PLC-B3 (residues 852-878) binds Ga(q) wit

124 y in O157:H7 isolates as a helix-turn-helix (HTH) truncated isoform.

125 ke (IgL), Armadillo (ARM), helix-turn-helix (HTH), and Src homology 3 (SH3).

126 n three structural motifs: helix-turn-helix (HTH), helix-hairpin-helix (HhH) and helix-loop-helix (HL

127 ed homology groups include helix-turn-helix (HTH), Immunoglobulin-related, and P-loop domains-related

128 e that K52 residues within helix-turn-helix (HTH), K80, R82 and R88 (in the wing) and L105 (in the al

129 gion (aa 418-530) with two helix-turn-helix (HTH)-like domains, and binds to a heat shock element (HS

130 It is a helix-turn-helix (HTH)-type transcription factor activated upon binding of

131 to the same catalytic function by homologous HTH domains.

132 (SCR), Extradenticle (EXD), and Homothorax (HTH).

133 res a third homeodomain protein, Homothorax (HTH).

134 nt alleles of the organ fusion gene HOTHEAD (HTH) can inherit allele-specific DNA sequence informatio

135 lar cloning and characterization of HOTHEAD (HTH), a gene required to limit cellular interactions bet

136 hat loss-of-function alleles of the HOTHEAD (HTH) gene in Arabidopsis thaliana are genetically unstab

137 ta-gamma-alpha-gamma-alpha") showed a hybrid HTH with "11/9/11/9/11/16/9/12/10" H-bonding, while the

138 ortunity for the design and study of "hybrid HTH" motifs with more than one kind of helical structure

139 ided access to the decapeptides with "hybrid HTH" motifs.

140 of tamoxifen on ATP levels in hypothalamic (HTH) and preoptic areas (POA) of the rat brain.

141 d to show that MelR residue 273, which is in HTH 2, interacts with basepair 13 of each target site.

142 th 10-6 M TAM led to decreased ATP levels in HTH (but not POA), and a 4-h incubation with 10-8 M led

143 tion with 10-6 M FLU decreased ATP levels in HTH (but not POA), while incubation with E2 did not affe

144 ne (FLU) and estradiol (E2) on ATP levels in HTH and POA slices.

145 is that both TAM and FLU alter ATP levels in HTH slices via calmodulin- or calcium-mediated processes

146 ata showed that, following a 2-h incubation, HTH and POA slices had comparable ATP levels to hippocam

147 lytical ultracentrifugation, that individual HTH motifs of the Bacillus phage SF6 small terminase bin

148 yonic leucine zipper kinase (MELK) inhibitor HTH-01-091, CRISPR/Cas9-mediated MELK knockout, a novel

149 ically affect the binding specificity of its HTH motif.

150 ter regulator of carbon metabolism, uses its HTH domain to bind hundreds of RNAs near intrinsic trans

151 Distributions of rmsd values for known HTH-containing proteins (true hits) and non-HTH proteins

152 ofoundly different way than most other known HTH regulators.

153 -parameter fits to GB and urea data for lacI HTH unfolding over a wide concentration range.

154 of effects of high GB concentration on lacI HTH stability.

155 osed in unfolding the marginally stable lacI HTH DNA binding domain.

156 uced unfolding of the marginally stable lacI HTH.

157 The urea m-value of the lacI HTH (-d deltaG(o)(obs),/dC(3) = 449 +/- 11 cal mol(-)(1)

158 om the surface exposed in unfolding the lacI HTH and from the folded surface of HEWL than expected fr

159 he observed decrease in m-value for the lacI HTH with increasing temperature, together with the obser

160 MEIS1/HTH also specifically binds to EXD with high affinity in

161 n the orientation of binding of the two MelR HTH motifs, and the juxtaposition of the different bound

162 ngrailed homeodomain helix-turn-helix motif (HTH).

163 HTH-containing proteins (true hits) and non-HTH proteins (false hits) were calculated.

164 6 M TAM decreased ATP levels in POA (but not HTH) slices, while the exposure of slices to the lower c

165 led to increased ATP levels in POA (but not HTH); a 15-min exposure to 10-6 M TAM decreased ATP leve

166 we investigate how such a circular array of HTH motifs enables specific recognition of the viral gen

167 The predominant class of HTH domains in archaea is the winged-HTH domain.

168 part of a multiprotein complex, composed of HTH, Hox, and EXD proteins, bound to DNA.

169 re is also a post-transcriptional control of HTH by exd: exd activity is required for the apparent st

170 The number and diversity of HTH domains in archaea is comparable to that seen in bac

171 e show that a conserved N-terminal domain of HTH directly binds to EXD in vitro, and is sufficient to

172 Single-copy expression of HTH-3 and HTH-4 from their native Pmga resulted in a dra

173 ain and to that of the homeodomain family of HTH DNA-binding proteins.

174 Using a dominant negative form of HTH we provide evidence that similar complexes are impor

175 pha/beta-octapeptides showed the presence of HTH structures with bifurcated 11/15-H-bonded turn.

176 Given the ubiquity of HTH-domain-containing proteins, it is anticipated that m

177 intrinsically bent DNA segment by a ring of HTHs which bind weakly but cooperatively.

178 A male-determining gene with a LOTUS/OST-HTH domain as well as the protein interactors of a femal

179 ment from its conserved C-terminal LOTUS/OST-HTH domain.

180 residue adjacent to either one or the other HTH motif.

181 e surface area threshold value of 990 A2 per HTH motif.

182 These data show the Cu-PrP HTH peptide reproduces the Cu-binding behavior of a sing

183 to its cognate DNA may involve both putative HTH motif-like regions.

184 of the protein (region I) or in the putative HTH motif (region II).

185 amino acyl residues in or near the putative HTH region of GerE and potentially other members of the

186 This putative HTH motif was found to be highly conserved in the CodY h

187 hat corresponds to the functionally relevant HTH motif itself.

188 h the conserved GnC sequence, and the second HTH interacts at or near the TGnnA sequences.

189 Likewise, the second HTH interacts with an adenine residue in binding site 2.

190 , Y250, T252, and R257 located in the second HTH motif contribute to the recognition of the TGnnA seq

191 clustered at a single residue in the second HTH motif, at a position consistent with improved RNAP c

192 A structural template library of seven HTH motifs has been created from non-homologous DNA-bind

193 Protein Data Bank for proteins with similar HTH structures near their surface.

194 However, how a single HTH regulator adjusts anti-CRISPR production to cope wit

195 try 1CMK , and a helix-turn-helix structure (HTH conformation), similar to PDB entry 4DFX , which sho

196 symmetric dimer with extended amino-terminal HTH (helix-turn-helix) domains that contact A-boxes.

197 N-terminal region (NTR), and its C-terminal HTH (helix-turn-helix) domain is also unique in DNA reco

198 main, as well as the AAA+ and the C-terminal HTH dom-ains of ZraR can be fitted into the reconstructi

199 d cnfR (patB) whose product has a C-terminal HTH domain and an N-terminal ferredoxin-like domain.

200 at to site 2 and site 2' with the C-terminal HTH located towards the promoter-proximal end of each si

201 nition element 1 (RE1), while the C-terminal HTH motif interacts with the less conserved recognition

202 ocated in the second helix of the C-terminal HTH motif.

203 While both N and C-terminal HTH motifs make essential contributions to binding site

204 gates via the linker helix to the N-terminal HTH DNA-binding domain.

205 pecific promoter DNA site via its N-terminal HTH domain to activate transcription of genes, including

206 Evidence suggests that the N-terminal HTH motif of SoxS interacts with a highly conserved regi

207 e sensitive to alterations in the N-terminal HTH.

208 rm ++ to a swarm (+) phenotype, showing that HTH-Xre regulates phase variation.

209 s our model for DNA-bound MelR suggests that HTH 2 must be adjacent to the melAB promoter -35 element

210 The HTH conformation is stabilized by S10 phosphorylation of

211 The HTH domain in archaea combines with a variety of other d

212 The HTH motif forms a tetramerization domain that results in

213 The HTH of the yeast and mammalian orthologues is essential

214 rations can be modelled for the AAA+ and the HTH domains, suggesting the nature of the conformational

215 It is shown that, besides the HTH domain, archaea encode unexpectedly large numbers of

216 The amino acids that comprise the HTH motifs of ExsA are nearly identical to those in LcrF

217 et of protein sequences, some containing the HTH motifs, others not.

218 of Ga(q), we hypothesized that embedding the HTH in a folded protein might stabilize the binding-comp

219 sequences in the DNA sequences encoding the HTH motif; none of them, except MerR, are known to be au

220 erator within the DNA sequences encoding the HTH region.

221 the long axis of the DNA helix, flanking the HTH interactions with the major groove.

222 (dT)9, (iii) provide data that implicate the HTH motif in dsDNA binding, and (iv) show that BRCA2 sti

223 with single amino acid substitutions in the HTH and non-specific DNA-binding by the wild-type protei

224 r, mutating a key DNA binding residue in the HTH homeodomain abolishes many of its in vivo functions.

225 lanine substitutions at two positions in the HTH region of GerE on binding to wild-type or mutant tar

226 region of this protein family, including the HTH motif.

227 e DNA-binding domains, which incorporate the HTH motif, the second library included shorter models of

228 d that the LOV domain binds and inhibits the HTH domain in the dark, releasing these interactions upo

229 c TFIIB and TFIIE-alpha possess forms of the HTH domain that are divergent in sequence, their archaea

230 sition of the DNA recognition helices of the HTH domain.

231 nge and subsequent proper positioning of the HTH domains in the major groove of the two half sites of

232 the identification of future members of the HTH family are discussed.

233 Expression analysis of the HTH gene shows that it is expressed in all tissues teste

234 Alternative conformations of the HTH motif may permit adjustment of the structure for opt

235 which protrudes the recognition helix of the HTH motif.

236 er with the recognition alpha-helices of the HTH motifs of each monomer separated by a distance of 34

237 st cell, GSH induces the correct fold of the HTH motifs, thus priming the PrfA protein for DNA intera

238 s required for the apparent stability of the HTH protein.

239 rophilic residues in the second helix of the HTH yields a stable, dimeric form of NtrC defective in D

240 Plasmid-encoded expression of the HTH-3 and HTH-4 alleles from a constitutive promoter (Ps

241 cterial-type transcriptional regulators, the HTH domain is conserved in archaeal and eukaryotic core

242 Cysteine alkylation sterically shifts the HTH recognition helix to evidently mechanistically coupl

243 Since the HTH peptide is unstructured in the absence of Ga(q), we

244 Surprisingly, the HTH domains of EspR are arranged in an unusual conformat

245 Here we show that the HTH domain of the regulator Aca2, in addition to repress

246 ence discrimination, which suggests that the HTH motif binds DNA as a folded domain and thus cleaves

247 trary single-site substrate suggest that the HTH motif contacts DNA similarly to how certain HTH prot

248 -containing proteins contact DNA through the HTH and hairpin structures, but only extended-ARID prote

249 e identified DNA sequences that bound to the HTH domain of Rv0890c.

250 For unfolding the HTH, deltaG(o)(obs) decreases linearly with increasing C

251 Uniquely, the HTH domain could also bind RNA.

252 possess an unusual architecture in which the HTH motifs are displayed in a ring, distinct from the cl

253 ally with the receptor TPR domain, while the HTH domain canonically recognizes two inverted repeats.

254 While the HTH motif is essential for the Metnase-TIR interaction,

255 facilitated by an arginine finger within the HTH motif to stabilize the extrahelical O(6)-alkylguanin

256 proteins use multiple combinations of their HTHs to recognize several types of target sites.

257 This HTH constitutes a second DNA-binding domain within PAF53

258 simple model for studies of the role of this HTH domain in DNA binding.

259 alterations in the hydrophobic core of this HTH.

260 ny of these proteins therefore contain three HTH motifs each able to recognize DNA.

261 Thus HTH domains might have been independently recruited for

262 A mutant protein, TnrA(HTH), was constructed in which the putative helix-turn-h

263 The TnrA(HTH) protein was unable to activate the in vivo expressi

264 cyclases, and Rv0890c harbors the NB-ARC-TPR-HTH domains.

265 The two HTH domains emanate from a dimerized DNA-binding module

266 we proposed a model to describe how the two HTH motifs are positioned.

267 n used to determine the positions of the two HTH motifs at target sites.

268 romoter's robbox, we determined that the two HTH motifs each bind a recognition element in vivo.

269 importance of different residues in the two HTH motifs of MelR.

270 their archaeal counterparts contain typical HTH domains.

271 oting Complex/Cyclosome binding to the UBE2S(HTH) reduces the conformational space of the flexible E2

272 ates DNA binding, which indicates an unusual HTH-DNA interaction mode in which the N termini of the r

273 2-RNA complex demonstrates how the versatile HTH domain specifically discriminates RNA from DNA bindi

274 the addition of another branch to the winged HTH protein family and could contribute to our understan

275 unexpectedly mediates dimerization, a winged-HTH and a Walker-box containing C-domain.

276 Zbeta maintains a winged-HTH fold with the addition of a C-terminal helix.

277 DriD consists of an N-terminal winged-HTH (wHTH) domain, linker region, three-helix bundle, WY

278 lass of HTH domains in archaea is the winged-HTH domain.