identification of sources of variation and outlier detection

... compilation ª 2007 FEBS T Neuhof et al Trichoderma hydrophobins Fig Intact-cell MALDI-TOF mass spectra of mycelia and spores of Trichoderma strains The masses 7347 and 7494 of T atroviride spores correlate ... Neuhof et al Fig Intact-cell MALDI-TOF spectra of mycelia (A, C, E) and sporulating mycelia (B, D, F) of three strains of H jecorina grown on malt agar The masses displayed have an error of about ... similar cleavage patterns of hydrophobins HFBIII of H jecorina and T longibrachiatum, and SRH1 and HFB1 of T atroviride, involving signal peptides, Kex2type processing, and C-terminal amino acid...

Ngày tải lên: 19/02/2014, 02:20

... Interestingly, the presence of NAD+ and NADH caused inhibition of CitM OAD activity but not of MaeE (Table 1) Moreover, we assayed the effect of ATP and ADP on the activity of these enzymes since ... particular, we scrutinized the effect of citrate, key intermediates (pyruvate, acetyl-CoA, acetyl phosphate and CoA) and major end products (acetate and lactate) of citrate and malate metabolism These ... that ATP and ADP also inhibited MaeE malic and MaeE and CitM OAD activities The inhibitory effect of ATP was greater than that exerted by ADP (Table 1) The consequences of the addition of substrate...

Ngày tải lên: 22/03/2014, 16:20

... product of the [5]-ladderane fatty acid Cleavage and internal proton shifts of bonds between C-10 and C-19 and C-13 and C-16 of the [5]-ladderane moiety (designated A) lead to a moiety comprised of ... chromatograms of the TLFs of (A) a 99.5% pure suspension of Candidatus ‘B anammoxidans’ strain Delft after base hydrolysis of the cell material, and (B) a mixed bacterial culture in which 81% of the ... resulted in the removal of some of these components (Fig 6) and the generation of substantial amounts of the ladderane sn-2 mono alkyl glycerol ether 11a and smaller amounts of the regular [iso-C16...

Ngày tải lên: 23/03/2014, 15:20

... of the eluted biotinylated phage were used to infect an exponentially growing culture of E coli TG1 for amplification and preparation of PhAbs for further rounds of selection Phage titration and ... characterization of scFvs 18 and 92 To further characterize the binding specificity of scFvs 18 and 92, CXCR4-expressing cell lines, including CEMX174, U937, Raji, HL60, Hut78, KG1a, and HeLa, and freshly ... bovine rhodopsin, has been solved, and theoretical models of CXCR4 and CCR5 are available, modeling of appropriate conformational spaces of the N-terminus and extracellular regions is still challenging...

Ngày tải lên: 30/03/2014, 20:20

... version of the proposed KCCA algorithm 3.4 A Unified approach to Wiener and Hammerstein system identification and equalization To identify the linear channel and the inverse nonlinearity of the ... adaptive version of kernel CCA which can be used for online identification of Wiener and Hammerstein systems 4.1 Formulation of KCCA as coupled RLS problems The special structure of the GEV problem ... system and, therefore, also obtains good performance 5.2 Online identification In a second set of simulations, we compare the identification performance of the three adaptive kernel CCA-based identification...

Ngày tải lên: 21/06/2014, 22:20

... (2s-1)th and (2s)th column equal to the first and second column of Qi and the (2d-2)th and (2d)th column equal to the third and fourth column of Qi , all other elements of Ai are zero, where s and ... with first and the second row sums equal to one as well as the sum of the elements of the sire block (first two columns of Qi ) and the sum of the elements of the dam block (last two columns of Qi ... effects v∗ of n animals and Ni = (Ni,1 ; Ni,2 ) the ith row of N and let nb be the number of base animals at the top of the pedigree which are considered to be unrelated and non inbred, and nmax...

Ngày tải lên: 14/08/2014, 13:22

... 4) and 32P-labeled ETS-1 (lanes and 4) or ssDNA L (lanes and 2) (B) EMSA was performed with EWS (lanes 2, and 6) and 32P-labeled Htelo (lanes and 4), dsHtelo (lanes and 6) or ssDNA S (lanes and ... RGG3 (lanes and 4) and 32P-labeled Htelo (lanes and 2) or rHtelo (lanes and 4) (B) EMSA was performed with RGG3 (lanes and 4) and 32P-labeled rHtelo (lanes and 2) or mut rHtelo (lanes and 4) (C, ... G-quadruplex DNA and RNA Fig S2 CD spectra of DNAs and RNAs Fig S3 Binding affinity of EWS and RBD to Htelo 998 Fig S4 In vitro arginine methylation of RGG3 by PRMT3 Fig S5 Identification of significant...

Ngày tải lên: 15/02/2014, 01:20

... FEBS 3079 Diversity of cellulosomes and their synergies I Fendri et al Table Identification of specific components detected in fractions F1, F5 and F6 using MS analysis All identifications were ... the number of unique matched peptides; Upep, the number of unmatched peptides in the MALDI-TOF experiments The function of new proteins is based on the GH family of the catalytic module and the ... for most of the cellulosomes No synergies were measured with the F3 ⁄ F5 pair (Fig 5) However, the F5 ⁄ F6 and F3 ⁄ F6 pairs showed synergies of 1.2 and 1.3, respectively, and a synergy of 1.2...

Ngày tải lên: 18/02/2014, 08:20

... addition of 0.25 mL of 40% potassium hydroxide solution and 0.25 mL of methanol, the cell suspension was boiled for Products were extracted three times with 0.2 mL of hexane and evaporated Pyridine and ... aglycone of the major soyasaponins is soyasapogenol B, and glycosides of soyasapogenol A are minor saponins in G max This abundance ratio strongly suggests high level of transcription of 22- and 24-hydroxylase ... shown), none of hydroxylated triterpenes and their glycosides has been identified The lack of understanding of triterpene metabolism in A thaliana makes it difficult to identify the function of each...

Ngày tải lên: 19/02/2014, 07:20

... least one half of the family is formed by ORFs coding for putative proteins of uncharacterized activity and specificity A striking feature of GH-57 is the sequence and length diversity of the individual ... TIM barrel) and two acidic residues, Glu123 and Asp214, which appear to define the catalytic centre of the enzyme Importantly, the distance between the pair of oxygen atoms of Glu123 and ˚ Asp214 ... basis of its catalytic activity, to provide new understanding concerning its bifunctionality and to establish links between this GH-57 amylopullulanase and other non pullulandegrading GH-57 and...

Ngày tải lên: 19/02/2014, 12:20

... interaction of Yef1p with Utr1p is of biological interest and may be related to the pronounced requirement of both Yef1p and Utr1p in the absence of Pos5p The elucidation of the localization of Utr1p and ... Properties of Yef1p and identification of Yef1p and Utr1p as ATP-NADH kinases The enzyme had an optimum pH of 8.5 in Tris ⁄ HCl (Fig 2A), the optimal temperature was 45 °C (Fig 2B) and half of its ... mmÆmin)1ÆU)1 and that of Utr1p was 3.5 mmÆmin)1ÆU)1; this was also similar to and higher than the Vmax value of the NAD of Yef1p (1.7 mmÆmin)1ÆU)1) and Utr1p (1.2 mmÆ min)1ÆU)1), respectively Km and Vmax...

Ngày tải lên: 20/02/2014, 01:20

... value and n represents the number of oocytes tested for each condition TRHRs and its similarity to most of the regions of the mouse, rat and fish TRHR2 indicate that xTRHR2 is a member of the ... current consists of a large, rapid and transient response that is typical of Ca2+-dependent Cl– channels activated after stimulation of PLC and the subsequent InsP3-dependent mobilization of Ca2+ from ... Diagram of the xTRHR cDNA, PCR primers and PCR products (A) Amplification of the middle region of the xTRHR cDNA by nested PCR The relative positions of the degenerated primers TRHR1, TRHR2, TRHR3, and...

Ngày tải lên: 21/02/2014, 03:20

... The mass spectrometry of radioactive peptides showed the presence of a doubly charged phosphopeptide of mass 974.0 and a singly charged phosphopeptide of mass 1946.3 both of which correspond only ... identified the presence of two doubly charged peptides (M + H)2+, of masses 783.7 and 824.0 The latter peptide is the phosphorylated form of the first one A singly charged peptide of mass 1566.5 was ... structure of munc18 according to the Ó FEBS 2002 Phosphorylation of syntaxin-1A by CKI and CKII (Eur J Biochem 269) 911 Fig Phosphorylation of syntaxin-1A (1–265, 1–190, 191–265) by CKI and CKII...

Ngày tải lên: 22/02/2014, 04:20

... representation of the susceptibility to proteolytic degradation of IGFBP-1 isoforms The y-axis shows the percentage of the ratio between the spot area of the degraded and that of the untreated ... stable, functional and well-structured C-terminal domain [30] and we have examined the propensity of the different isoforms of IGFBP-1 to backbone cleavage in the presence of this partially purified ... fraction and the last eluting fraction, VI, displayed a very similar mobility to that of fraction V A 5 B Mass determination of the IGFBP-1 isoforms The molecular mass of the six IGFBP-1 isoforms...

Ngày tải lên: 07/03/2014, 00:20

... respectively The 17,20-lyase action of CYP17 produces the cleavage of the C17,20 bond of 17-OHPREG and 17-OHPROG to yield the adrenal androgens dehydroepiandrosterone (DHEA) and androstenedione (A4), respectively ... the slopes of the standard curves generated by lightcyclerÒ software (version 3.5) over two orders of magnitude, and were always > 95% Ct values were generated for both the target and reference ... column to 56% A and 44% B in 0.5 The total run time per sample was 11 at a flow rate of 0.3 mLÆmin)1 The injection volume of standards and samples was lL An API Quattro Micro tandem mass spectrometer...

Ngày tải lên: 07/03/2014, 06:20

... Elution of the activity in Mono Q fractions I and II using a Superose column (s, d) Activity of fractions I and II, respectively (B, C) Results of SDS ⁄ PAGE analysis of fractions I and II Lane ... position of the absorbance peak (280 nm) of the standard marker with that of aspartyl aminopeptidase Effect of inhibitors on aspartyl aminopeptidase activity Solutions of various inhibitors of enzymatic ... and structure of zinc enzymes and other proteins Biochemistry 29, 5647–5659 Wilk S, Wilk E & Magnusson RP (2002) Identification of histidine residues important in the catalysis and structure of...

Ngày tải lên: 07/03/2014, 12:20

... phosphoenolpyruvate, 2.5 U pyruvate kinase and variable amounts of protein extracts Incubations were carried out at 37 °C for 30 min, and reactions were stopped by addition of 350 lL of ethanol Radiolabeled compounds ... concentrations of GlcNAc were used in the presence of 10 mM ATP For determination of the Km of ATP, different concentrations of ATP were used in the presence of mM GlcNAc Site directed mutagenesis Site ... catalytic mechanism of GlcNAc kinase Kinetic characterization of GlcNAc kinase and cysteine mutants In order to get a more detailed insight into the functions of specific cysteine residues of GlcNAc kinase,...

Ngày tải lên: 08/03/2014, 10:20

... purification challenging Moreover, the identification of rat liver carboxylesterases based on pI values is difficult because of the complexity of their banding patterns and the variation in the reported values ... activity and the activity bands for corresponding peaks are labeled with arrows In this gel, peak appeared as a doublet (band a and b) Each peak was further separated on nondenaturing PAGE and the bands ... of each nucleotide and 2.5 U of Amplitaq The rat liver cDNA was denatured at 95 °C for and amplified using a DNA Thermal Cycler (Perkin-Elmer) with 35 cycles of 95 °C for min, 58 °C for 30 s and...

Ngày tải lên: 08/03/2014, 10:20

... hepatomegaly and decreased bile acid excretion [16] The aim of this study was to explore the molecular mechanism of ligand binding and activation of PXR by modeling and site-directed mutation of the ... intriguing and more unexpected result was the identification of an amino-acid position in the PXR structure that dramatically affects the basal activity of both the human and mouse receptors MATERIALS AND ... Pregnenolone-16a-carbonitrile (PCN) and SR12813 (Fig 2) All compounds are well characterized ligands for human and mouse PXR, where rifampicin and SR12813 are potent activators of the human receptor and PCN primarily...

Ngày tải lên: 08/03/2014, 16:20

... view of the interactions of papain with loop L6 of chagasin and loop L2 of cystatin B (C) Zoom-in view of the interactions of papain with loop L4 of chagasin and the N-terminal segment of cystatin ... identified, raising the prospect of accurate structure-aided design of specific inhibitors of cruzipain and cathepsins Detailed knowledge of the structure and inhibition mode of chagasin should be valuable ... view of the interactions of papain with loop L2 of chagasin and loop L1 of cystatin B R91 even stronger Finally, the guanidinium group of R91 is also hydrogen-bonded to the carbonyl group of G20e...

Ngày tải lên: 16/03/2014, 04:20