ライフサイエンスコーパス: specific contact

1 t there is a temporal order for formation of specific contacts.

2 inding than mutations predicted to make base-specific contacts.

3 rion morphogenesis does not involve sequence-specific contacts.

4 t rely solely on the residues that make base-specific contacts.

5 ve, with a number of amino acids making base-specific contacts.

6 long variable arm of tRNA(Sec) with few base-specific contacts.

7 e receptor domains that make the actual base-specific contacts.

8 performs better on both conserved and family-specific contacts.

9 ix domain (WHD), but use remarkably few base-specific contacts.

10 zed by RT more by structure than by sequence-specific contacts.

11 ing residues in all other subunits make base-specific contacts.

12 hich are then stabilized by additional dimer-specific contacts.

13 interactions are predominantly through base-specific contacts.

14 mined in relationship to the nature of three specific contacts: a turn-hydrogen bond, a mainchain-to-

15 Both the HMG-I(Y) and HMG-1 proteins made specific contacts across the 4H DNA branch point, as wel

16 lizes the loop containing Met80 and, through specific contacts, affects the mobility of helix 3 and p

17 e bases in the major groove and numerous non-specific contacts along the sugar-phosphate backbone.

18 apse directly on the ipsilateral M-cell, the specific contacts and anatomical distributions of these

19 Five amino acids make base-specific contacts and are expected to contribute signifi

20 Several arginine side chains make base-specific contacts, and an asparagine residue contacts a

21 s embraces Pum and RNA, contributes sequence-specific contacts, and increases Pum RNA-binding affinit

22 the difference between predictions based on specific contacts (approach introduced here) and those b

23 Specific contacts are found between charged lysine and a

24 timer, and it remains to be determined which specific contacts are in cis or trans with respect to th

25 Moreover, important sequence-specific contacts are made with bases that are not conse

26 emonstrate that potential phosphate and base-specific contacts as well as ribose moieties protected u

27 t pronounced regional differences in the age-specific contacts at home were noticeable, with more int

28 The individual homologous subunits form specific contacts at interfaces with neighboring subunit

29 interfere with the ability to establish base-specific contacts at resolution hotspots.

30 y electrostatics at long range and guided by specific contacts at short range, particularly involving

31 Rev-RNA recognition relies on sequence-specific contacts at the well-characterized IIB site and

32 tructurally rigid binding site with numerous specific contacts bestows specificity on HH26 whereas th

33 sed on psoralen photochemistry to identify a specific contact between a fragment of Tat protein (resi

34 is is the first identification of a sequence-specific contact between P protein and pre-tRNA that con

35 act approach we have obtained evidence for a specific contact between RhaR D276 and sigma70 R599.

36 arrangement of the AAA(+) rings, suggesting specific contact between the heads.

37 Formation of a specific contact between two residues of a polypeptide c

38 The structure shows specific contacts between a single copy of the internal

39 l structure of a modified PUF domain reveals specific contacts between an arginine side chain and the

40 een the pair of ARG boxes facilitate the non-specific contacts between ArgR subunits and the residual

41 showed that this activation does not require specific contacts between C and the carboxyl-terminal re

42 onent of the basement membrane that mediates specific contacts between cellular surfaces and their en

43 h specific protein-base interactions and non-specific contacts between charged side-chains and the ph

44 us completing a survey of the major sequence-specific contacts between GlnRS and tRNAGln.

45 dues and negative charges, but the result of specific contacts between gp120 and a well defined sulfa

46 The data indicate that specific contacts between gp59 molecules and the A-domai

47 uced by Sos is mediated by a small number of specific contacts between highly conserved residues on b

48 ome models of carboxysome function depend on specific contacts between individual RuBisCOs and the sh

49 on as protein interaction modules, mediating specific contacts between members of functional complexe

50 evidence highlighting the importance of base-specific contacts between ppGpp and specific cytosine re

51 across the domain interface may depend upon specific contacts between residues of the 280's loop and

52 ognition of the P1 promoter does not require specific contacts between RNA polymerase and its poor -3

53 tegrin beta3 cytoplasmic domain and identify specific contacts between talin and the integrin tail re

54 the paromomycin-ribosome complex, we observe specific contacts between the apical tip of H69 and the

55 The two structures together suggest that specific contacts between the chaperone and Cse4, rather

56 by solution-state NMR spectroscopy revealed specific contacts between the Fn N terminus and two of t

57 richia coli RNase P are enhanced by sequence-specific contacts between the fourth pre-tRNA nucleotide

58 activation is limited by the availability of specific contacts between the G protein and the third in

59 ound conformations of G proteins reveals how specific contacts between the gamma-phosphate of GTP and

60 s simultaneously with H1s without disturbing specific contacts between the H1 globular domain and nuc

61 al surfaces and proteins very likely involve specific contacts between the lattice and the protein si

62 M.EcoKI despite the removal of non-sequence-specific contacts between the protein and the DNA phosph

63 h binding and bending with little regard for specific contacts between the protein and the DNA.

64 bioinformatic analyses suggest that sequence-specific contacts between the protein subunit and the le

65 We determined the specific contacts between the ribosomal proteins and 16S

66 ein-surface interaction likely involves very specific contacts between the surface atoms and the key

67 ent of peptide-MHC class II ligands involves specific contacts between the TCR and residues on both t

68 HC "anchor point." Strikingly, there are few specific contacts between the TCR CDR3 loops and the MBP

69 but a generalizable strategy for engineering specific contacts between these particles is an outstand

70 hermore, this conformational change requires specific contacts between transposase and the flanking T

71 periments designed to test the importance of specific contacts between VP1 and the carbohydrate moiet

72 However, binding to GRCGNC requires base-specific contact by two Mad proteins, and here we provid

73 tion, DNA bases that are subject to sequence-specific contacts by regulatory proteins.

74 seems to arise from a larger number of base-specific contacts contributing to affinity than for Fis.

75 del for the Michaelis complex to examine the specific contacts critical for substrate binding and cat

76 tutions at positions in which there are base-specific contacts decrease the level of repression.

77 us G.C flanking base pairs, rather than base-specific contacts, determines HMG1domA protein selectivi

78 However, the specific contacts differ substantially between the two c

79 While ZF2 does not make sequence-specific contacts, each finger of ZF3-7 contacts three b

80 ropionate) cross-linking was used to measure specific contacts for both H5 and GH5 free in solution a

81 Specific contacts form at the loci experimentally inferr

82 is achieved through the formation of highly specific contacts formed by charged residues as demonstr

83 s high-affinity sites, there are no sequence-specific contacts formed with the protein.

84 aged by the proximal domain, with proper and specific contacts from Phe194 and Gln201 (Q motif) to th

85 protein-DNA interaction, involving sequence-specific contacts from the wing to the minor groove.

86 stitution at the only residue making an oxoG-specific contact (G42A mutation) introduced torsional st

87 ny cases, residues not expected to make base-specific contacts had effects on specificity.

88 identical half-sites through extensive base-specific contacts; however, RXR binds exclusively to the

89 sisting of a loop structure which makes base-specific contacts (HR1) and a helix which primarily cont

90 ic natural killer (NK) cells mediate antigen-specific contact hypersensitivity (CHS) in mice deficien

91 r immunological memory in the form of hapten-specific contact hypersensitivity independent of T and B

92 was required for efficient priming of hapten-specific contact hypersensitivity responses, but was dis

93 uggesting that the enzyme does not make base-specific contacts important for binding or catalysis in

94 ved to interact with SpyCatcher, pointing to specific contacts important for rapid split protein reco

95 The predicted requirement for base-specific contacts in exon 1 for cleavage by I-BasI was c

96 act areas and predicts correctly orientation-specific contacts in NMR data.

97 e, GAM highlights a role for gene-expression-specific contacts in organizing the genome in mammalian

98 The F alpha-helix, which provides all base-specific contacts in the CRP-DNA complex, became hyperse

99 a2 mutant lacking side chains that make base-specific contacts in the major groove is able to discrim

100 mers, with each protein monomer making base- specific contacts in the major groove.

101 cognition and allows us to assign additional specific contacts, in particular those involving the (al

102 endent on secondary structure and on residue-specific contact information.

103 d cross-linking measurements have identified specific contact interactions between the cytosolic and

104 These additional, T3Rbeta-2-specific contacts interfere with the subsequent associat

105 results suggest that a F3.36(201)/W6.48(357)-specific contact is an important constraint for the CB(1

106 more likely than controls to report using a specific contact lens solution, ReNu with MoistureLoc (6

107 mutant (DU1090/pDU1212) were bound to rabbit-specific contact lenses, treated with spermidine (50 mM)

108 This approach enabled us to dissect specific contacts made by different monomers within the

109 ndings, we propose a model in which sequence-specific contacts made by PI-SceI contribute to its loca

110 sitions, in which there are no apparent base-specific contacts made by the protein in the alpha2-DNA

111 nds is a function of both shared and complex-specific contacts made with each epitope.

112 ctive site suggests that, in addition to the specific contacts maintained between Tnp and its recogni

113 ed to the duplex by a similar set of nonbase specific contacts, malleable protein-DNA interactions en

114 can use phased genotype data to build allele-specific contact maps.

115 anemone STING recognizes through nucleobase-specific contacts not observed in human STING.

116 the conserved Lys-532 residue, the only base-specific contact observed previously in the human topois

117 used a photocross-linking method to identify specific contact of CCAAT-binding factor (CBF) subunits

118 x, which is known to confer most of the base-specific contacts of HDs with DNA, was almost identical

119 (RNAP) recognizes promoters through sequence-specific contacts of its promoter-specificity components

120 with docking calculations have defined many specific contacts of the complex between the AT-rich int

121 n the Rv1057 intergenic region and generates specific contacts on the same side of the DNA helix.

122 complex, suggesting that CBF makes sequence-specific contacts only in the CCAAT motif region.

123 eased CYT-18 binding, reflecting either base specific contacts or indirect readout of RNA structure b

124 ing a limit on the extent of selection for a specific contact pattern.

125 ailed contact network study to show that age-specific contact patterns alone can explain shifts in pr

126 estimated the proclivity of age-and-location-specific contact patterns for the countries, using Marko

127 n Ste2p and alpha-factor, thereby defining a specific contact point between the bound ligand and its

128 city in the location of the third helix, DNA specific contact points (such as amino acids 4 and 29),

129 structure models with A3G and A3F by mapping specific contact points between both proteins.

130 he yHac1 and the YY1 binding sites uncovered specific contact points for an activator protein predict

131 form SMN-SMN disulfide crosslinks, defining specific contact points in oligomeric SMN.

132 entrance are critical for binding, although specific contact points vary between the two.

133 perativity contribution to determine residue-specific contact probabilities in the denatured state an

134 Without this specific contact, productive unwinding of plasmid ori ga

135 Together with age-specific contact rates in Finland, contemporary forces o

136 This is the first determination of a specific contact region between a Class IV GPCR and its

137 The specific contact resistance at high gate voltages for go

138 bind in the ATP binding pocket and make S6K1-specific contacts, resulting in changes to the p-loop, a

139 Specific contact sites in STAT3 responsible for interact

140 yeast underlies the plasma membrane (PM) at specific contact sites to enable a direct transfer of in

141 These results indicate that specific contact sites, thermodynamics, and kinetics all

142 sed on crystal structures of either SLA (SLA-specific contacts, Ssc) or HLA supertype alleles (HLA co

143 quinolone scaffolds do not take advantage of specific contacts that might be made with the enzyme.

144 effect derives from the organization of the specific contacts that SerRS makes with the neighboring

145 Thus, rather than loss of specific contacts, the free energy cost of distorting DN

146 e evidence that zinc finger 5 makes sequence-specific contact through the major groove of both nuclei

147 shed through electrostatic effects, although specific contacts through gamma-ionizable residue side c

148 obility, but also the stereochemistry of the specific contact to O6.

149 served L13 residue in the U1-C protein makes specific contact to stabilize the U1 snRNA/5' splice sit

150 virus Tat protein makes a critical sequence-specific contact to TAR RNA.

151 tein backbone, while the second makes a base-specific contact to the DNA sense strand.

152 that GR binds directly to TREs via sequence-specific contacts to a GR-binding sequence (GBS) half-si

153 plex, and that the co-activator makes stereo-specific contacts to both the POU protein and the major

154 the transcription start site, makes sequence-specific contacts to region 1.2 of the sigma subunit of

155 Both TADs I and IV were also shown to make specific contacts to the C-terminal segment of TFIIB.

156 N4 binds as a dimer, with one monomer making specific contacts to the consensus half-site and the oth

157 hese data indicate that TFIID makes sequence-specific contacts to the DCE and that TFIID binding is n

158 In addition, SimR makes a number of sequence-specific contacts to the major groove via its helix-turn

159 While the protein makes numerous specific contacts to the non-consensus nucleotides in th

160 y of DNA binding, despite an absence of base-specific contacts to this region.

161 e RRE sequence than Rev by forming more base-specific contacts, using water to mediate peptide-RNA co

162 Specifically, new fetal stage-specific contacts were uncovered between a region separa

163 This is the first example of HU making a specific contact with another protein.

164 n, the spacer region does not appear to make specific contact with C.

165 indicate that the brown gene is silenced by specific contact with centromeric heterochromatin.

166 hat only one subunit of a pi35.0 dimer makes specific contact with DNA.

167 a conserved region that is required for base-specific contact with DNA.

168 e beta-hairpin amino acids that mediate base-specific contact with GTCT.

169 Arg254 and Glu189 join to form a specific contact with one of the phenolic hydroxyls of t

170 oregulation at the operator site by making a specific contact with ParA.

171 imilarly, ParA acts in partition by making a specific contact with ParB bound at parS.

172 hich overlaps the promoter, where it makes a specific contact with the C-terminal domain of the alpha

173 n may indicate that the LCR need only make a specific contact with the proximal gene promoter to acti

174 We combined PROFcon predictions for protein-specific contacts with a generic pairwise potential to p

175 report that B. subtilis NusG makes sequence-specific contacts with a T-rich sequence in the non-temp

176 catalytic site of one molecule is blocked by specific contacts with a wedge from the other.

177 ng mode is augmented by unexpected chemotype-specific contacts with amino acid residues Asn352 and Gl

178 cond and fifth positions of the G tract make specific contacts with amino acids in the RNase H domain

179 lix motif lies deep in the major groove with specific contacts with bases in both strands in the core

180 hates, steer side chains that end up forming specific contacts with bases into bound-like conformatio

181 1, we found that Arg202 and Arg206 both make specific contacts with bp -65 and -67 in rhaI1, and that

182 n the ribosomal intersubunit space and forms specific contacts with components of the ribosomal A, P,

183 All sequence-specific contacts with core promoter elements are mediat

184 alyses illustrated that CXCL12 monomers made specific contacts with CXCR4 that were lost following di

185 onserved thymine bases while Gln43 makes non-specific contacts with different types of bases in diffe

186 Adr1-F1F2 in which finger 2 makes three base-specific contacts with DNA had a higher affinity for DNA

187 ctured protein domain, which then makes base-specific contacts with DNA.

188 t the non-duplex sequences may form sequence-specific contacts with duplex portions of the ribozyme,

189 on of receptor Ig domain 2 (D2) to introduce specific contacts with FGF10.

190 SS (FRU) transcription factor, but form male-specific contacts with FRU-expressing neurons; calcium i

191 ecule in the DNA minor groove, and potential specific contacts with functional groups in the floor an

192 on of the posterior lateral line establishes specific contacts with hair cells of the same hair-bundl

193 does not require E protein to make sequence-specific contacts with M protein.

194 d the splice junction but U1-C makes no base-specific contacts with pre-mRNA.

195 at substrates bind predominantly through non-specific contacts with protein hydrophobic residues.

196 the recognition helix predicted to make base-specific contacts with RE2 have relatively little effect

197 Furthermore, it was postulated that base-specific contacts with residues in the middle domain cou

198 his work, amino acids in RhaS that make base-specific contacts with rhaI were identified.

199 sitioning reveals that each TM segment makes specific contacts with Sec61alpha and is retained at a f

200 analog studies suggest that IntDOT may make specific contacts with the A residues in the major groov

201 the N-terminal domain include disruptions of specific contacts with the alpha1 helix, which were reve

202 te that the observed stimulation arises from specific contacts with the beta5 strand (residues 239-24

203 irpin loop (the specificity loop) that makes specific contacts with the binding region of the promote

204 s with a flagellar basal body and MotA makes specific contacts with the C ring and/or the MS ring.

205 ytic site of the bisphosphatase and includes specific contacts with the C-terminal regulatory region

206 a that the substrate participates in subunit-specific contacts with the chaperonin.

207 n of CXCR4, including sulfotyrosine 21, make specific contacts with the chemokine ligand.

208 ng consensus in which the protein makes base specific contacts with the cognate DNA further improved

209 o orientate the arginine side chain to allow specific contacts with the DNA.

210 Selected peptides make specific contacts with the effector-binding region of Ga

211 n binds to the closed form of KcsA and makes specific contacts with the extracellular surface of the

212 s within individual finger domains make base-specific contacts with the major groove of DNA.

213 , GW5638 repositions residues in H12 through specific contacts with the N terminus of this helix.

214 ino acids in the connection domain that make specific contacts with the nucleic acid.

215 RNA polymerase (RNAP), which makes sequence-specific contacts with the promoter -10 and -35 elements

216 nto the major groove of the DNA to make base-specific contacts with the promoter region.

217 of 28 kb in primary placental nuclei to make specific contacts with the promoters of the two GH genes

218 A binding site does not form strong sequence specific contacts with the protein.

219 classical binding mode, the SH2 domain makes specific contacts with the pY residue and the three resi

220 does not require the continuous formation of specific contacts with the ribose-phosphate backbone as

221 However, a kink in H16 that makes specific contacts with the S4 N-terminal extension, as w

222 minor groove and a large network of non-base-specific contacts with the sugar phosphate backbone.

223 onstrate the importance of DNA structure and specific contacts with the viral DNA processing site for

224 cal for productive viral DNA binding through specific contacts with the virus DNA ends in the 3'-proc

225 Eight peptide residues make specific contacts with the X11 PTB domain, and they coll

226 Specific contacts with three WIP epitopes corresponded t

227 Transcription factor AP-1 is known to make specific contacts with thymine methyl groups of DNA in i

228 he ribosomal decoding site and may make base-specific contacts with tmRNA ligands.

229 suggested that TraR makes extensive sequence-specific contacts with tra box DNA.

230 nt groups of ORC subunits that make sequence-specific contacts with two distinct regions of the DNA.

231 e to promoter recognition by making sequence-specific contacts with upstream (UP) elements that are a

232 volves two minor grooves and has no sequence-specific contacts, with the exception of a single hydrog

233 n TM1 and TM2 were used to further elucidate specific contacts within a monomer subunit, enabling a m

234 between kinase domain N-lobes, in which the specific contacts within the interface are coupled to th

235 We conclude that the sequence-specific contacts within the recognition sites contribut

236 hereas I-HmuI is known to make its only base-specific contacts within this exon region, structural mo