Tài liệu Báo cáo khoa học: Bioinformatics of the glycoside hydrolase family 57 and identiﬁcation of catalytic residues in amylopullulanase from Thermococcus hydrothermalis doc

... 2004 Bioinformatics of the glycoside hydrolase family 57 and identiﬁcation of catalytic residues in amylopullulanase from Thermococcus hydrothermalis Richard Zona1,*, Florent Chang-Pi-Hin2,*, Michael ... FranceFifty-nine amino acid sequences belonging to family 57 (GH -57) of the glycoside hydrolases were collected using the CAZy server, Pfam database and BLASTtools. Owing to the sequence heterogeneity of ... C-termini of the strands b4andb7ofthe catalytic (b/a)7-barrel [16]. However, these residues have noFig. 1. Conserved seque nce regions in the family GH -57. Abbreviations used for the GH -57 members...

Tài liệu Báo cáo khoa học: Interleukin-1-inducible MCPIP protein has structural and functional properties of RNase and participates in degradation of IL-1b mRNA doc

... a PIN domain(mutMCPIP). The fragment from 412-888 bp, correspond-ing to the PIN domain, was removed from the entire cod-ing sequence of the MCPIP gene. The coding sequencelacking the PIN ... acidic residues (D141, E185, D226, D244) in PINdomains involved in binding Mg2+ions are conserved in all three sequences. Other conserved residues areR263, V139 and N144. Determination of the ... black bars. (B) Alignment of the SMG6 PIN domain (PDB: 2hww), the bacterial hypo-thetical protein PIN domain (PDB: 1o4w) and the MCPIP PIN domain. Identical residues are indicated by asterisks,...

Tài liệu Báo cáo khoa học: "Japanese Dependency Parsing Using Co-occurrence Information and a Combination of Case Elements" pdf

... training corpus by calculating the weights from the frequencies of the features in the trainingdata.3 Japanese dependency analysis takingaccount of co-occurrence information and a combination ... simply adding it as a feature doesnot improve the accuracy.5.5.3 Changing the amount of training dataChanging the size of the training data set, weinvestigated whether the degree of accuracy ... the balance of the two proba-bilities, and is ﬁxed to the best value by consider-ing development data (different from the trainingdata)1.RerankingCandidate 1Candidate 2Candidate 3Candidate...

Tài liệu Báo cáo khoa học: "Which Are the Best Features for Automatic Verb Classiﬁcation" pdf

... contains mainly syntactic in- formation, whereas CO lexical information. The other four feature sets include both syntactic and lex-ical information.SCF and DR: These more linguistically informedfeatures ... contexts of each target verb with their part -of- speech tags. (3)keeping words in the left window only if they aretagged as a nominal.SCF+CO: We combine the SCF and CO features.JOANIS07: We use the ... studied in Levin(1993) (hereafter Levin). Levin’s verb classes arebased on the ability of a verb to occur or not occur in pairs of syntactic frames that are in some sensemeaning preserving (diathesis...

Tài liệu Báo cáo khoa học: Neuronal growth-inhibitory factor (metallothionein-3): reactivity and structure of metal–thiolate clusters* doc

... located in independent domains(a b-domain for the N-terminal cluster and ana-domain for the C-terminal cluster). In the absence of metals, apo-thionein (apo-T) is predominantly unstruc-tured and ... composed of a single polypep-tide chain of 61–68 residues. They are characterized bya conserved array of 20 cysteines and the absence of His and aromatic amino acids. MT3 contains 68amino acids ... DTNB)Metals in MTs are relatively deeply buried in the pro-tein. The modiﬁcation of the surface-accessible sulfur of cysteine ligands is thought to be the key thatunlocks the metals from the protein...

Tài liệu Báo cáo khoa học: Evidence that the assembly of the yeast cytochrome bc1 complex involves the formation of a large core structure in the inner mitochondrial membrane pdf

... repre-sent the last subunits incorporated into the bc1com-plex. On the other hand, the absence of Qcr9p in the DQCR9 ⁄ DQCR10 strain prevented the binding of ISP(Fig. 4B). Interestingly, in the ... addition of ISP and Qcr10p).On the other hand, in the transition from the 500 kDaband to the 670 kDa band, a structural rearrangement of the bc1complex may occur due to the binding of ISP and ... comparable amounts in both yeast strains. Therefore, the reason for the disap-pearance of the bc1dimer in the yeast strain in whichQcr10p is missing remains unknown.On the basis of all the above...

Tài liệu Báo cáo khoa học: Looking for the ancestry of the heavy-chain subunits of heteromeric amino acid transporters rBAT and 4F2hc within the GH13 a-amylase family ppt

... barrel domain,including domain B and the C-terminal domain C forrBAT proteins (669 residues on average); (b) the cata-lytic TIM barrel domain, including domain B and the C-terminal domain C for ... is the lack of domain B protruding out of the TIM barrel in the place of loop 3 connecting the b3-strand to the a3-helix [9,21]. Sharing domain B by rBATs and GH13 enzymes, and especially the ... residues (307_GVDGF in human rBAT) preceding the func-tional arginine (arginine 197 in oligo-1,6-glucosidase) in region II of the b4-strand; and (c) more or less the entire region VII, i.e. the b8-strand. The...

Tài liệu Báo cáo khoa học: Insights into the structure of plant a-type phospholipase D Susanne Stumpe, Stephan Konig and Renate Ulbrich-Hofmann ¨ ppt

... point to tight packing of the aromatic residues in the core of the protein. From the near-UV CD signals and activity data as a function of the calcium ion concentration, two bind-ing events characterized ... estimated from isothermal titration calorimetry[36]. The C2 domains of other proteins showed cal-cium-binding afﬁnities in the range of 1–50 lm [37,38].As the C2 domain of PLD a2 from cabbage ... illustrates the quality of the experimental data(Fig. 2B).Reconstruction of the overall shape of the PLDa2 from the X-ray scattering data was achieved by the ab initio modeling program dammin [24]. The...

Tài liệu Báo cáo khoa học: Hypoxia reduces the expression of heme oxygenase-2 in various types of human cell lines A possible strategy for the maintenance of intracellular heme level pdf

... hypoxia on HO-1 and HO-2 expression in human cell linesWe initially analyzed the effects of hypoxia on the expression of HO-1 and HO-2 in human cell lines of bone marrow origin, including KG1 myeloid ... the intensity for the a-tubulin signal. Shown are the relativeexpression levels of HO-1 and HO-2 proteins in YN-1 cells (B) and those of HO-2 protein in K562 cells (D). The intensity representing ... C). Other conditions are described in Fig. 1B. The intensities of the signals in (A) and (C) were quantiﬁed, and the intensity representing HO-1 or HO-2 protein was normalized with respect to the...

Tài liệu Báo cáo khoa học: Enzymes for the NADPH-dependent reduction of dihydroxyacetone and D-glyceraldehyde and L-glyceraldehyde in the mould Hypocrea jecorina doc

... activity in crude yeastextract as the untagged protein, indicating that the tagwas not interfering with the protein activity. The tagged protein was puriﬁed and then used for furtheranalysis. In the ... nkatÆmg)1. The GLD1 pro-tein was tagged with a histidine tag at the N-terminalend by adding the coding sequence for six histidines to the end of the open reading frame, and then expressed in S. ... The tagged protein had a similar activ-ity in the crude extract as the nontagged protein, indi-cating that the tag did not affect the protein activity. The tagged protein was then puriﬁed and...

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