input from structural and conformational analysis

... characterized and, upon comparison with H pylori TenA, a high degree of structural similarity is observed, with the exception of mutations in position 47, from Tyr to Phe, and position 51, from Phe ... [11], the Pyrococcus horikoshii homologue (PDB code: 1UDD) [12] and TenA from B subtilis (PDB codes: 1TO9, 1TYH, 1TAF, 1TAK) [5] and from Pyrobaculum Aerophilum (PDB codes: 2GM7, 2GM8) In all cases, ... surface (7700 A2), which involves parts of a-helices C, D, G and L and connections between helices C–D, G–H, K–L and F–G The molecular weight from the gel filtration experiment indicates that the tetramer...

Ngày tải lên: 16/03/2014, 00:20

... potential and white represents areas of neutral potential The putative exosite is highly electronegative and equidistant from the two active sites Tyr300 of the first p10 subunit and with Glu257 from ... tetrapeptide motifs in their substrates Caspases-1, and prefer the tetrapeptide WEHD, whereas caspase-2, and have a preference for DEXD, and caspase-6, and prefer (L ⁄ V)EXD [21,22] However, a peptide ... structures reveal that non-optimal peptides for group III and optimal peptides of group I and II can bind and form favorable interactions within S2, S3 and S4 subsites of group III caspase-7 Also, a new...

Ngày tải lên: 18/02/2014, 16:20

... mapping and trNOE-based conformational analysis of the MUC-1 peptide PDTRP and the MUC-1 glycopeptide PDT(O-aD-GalNAc)RP (cf Figure 1) bound to the monoclonal antibody SM3 MATERIALS AND METHODS ... intensity in the STD spectrum Obviously, Pro1 and Asp2 get more saturation from the protein than the remaining residues of the ligand and therefore have more and tighter contacts to the antibody’s surface ... from the 1D STD experiments The strongest signals are again cross peaks from Pro1 trNOE experiments with PDTRP and SM3 The conformation of the peptide ligand PDTRP bound to SM3 was obtained from...

Ngày tải lên: 21/02/2014, 15:20

... Here we confirm and extend earlier studies of these AAA-peroxins and give a further detailed functional analysis of their cassette structure and interaction The interaction of Pex1p and Pex6p involves ... introduced by overlapping PCR with primers KU473 and KU474 and digestion with XbaI and PstI After ligation with BamHI ⁄ XbaI and PstI ⁄ BamHI fragments of psk100 and subsequent digestion with BglI, it ... presence of Pex1p and Pex6p by SDS ⁄ PAGE and immunoblot analysis with antibodies against Pex1p, Pex6p and anti-(rabbit IgG) 56 I Birschmann et al Microscopy Potassium permanganate fixation and preparation...

Ngày tải lên: 07/03/2014, 16:20

... residues of D3 and B contribute to the stability of the dimer The first cluster includes F70/V336 and I72/Q338 (both in b5 strand) of D3 and F27/Y289 (b2 strand), L67/M324, V70/I327 and L72/L328 ... tasks Structural modelling of ataxin-2 First, we compiled a list of ataxin-2 homologues including the yeast homologue Pbp1 and several Lsm domains of snRNPs and other Sm and Sm-like proteins from ... in b4 strand) of B The second cluster consists of P6/M267, L10/ L271 (both in a-helix), V18/C279 (b1 strand), L32/F293 (b2 strand), I33/K294 (loop after b2 strand), I68/F334, L71/ V337 and L73/F339...

Ngày tải lên: 30/03/2014, 15:20

... to teach structural analysis and stress analysis, or theory of structures and strength of materials as they were frequently known, as two separate subjects where., generally, structural analysis ... to study in their first two years since third- and fourth-year courses in structural and/ or stress analysis can be relatively highly specialized and are therefore best served by specialist texts ... being perfectly qualified from the point of view of pure mathematics, lack a knowledge of structural mechanics, an essential basis for the study of structural and stress analysis Therefore a chapter...

Ngày tải lên: 04/06/2014, 13:27

... Since Structural and Stress Analysis was first published changes have taken place in courses leading to degrees and other qualifications in civil and structural engineering Universities and other ... courses in structural and stress analysis must begin at a more elementary stage The second edition of Structural and Stress Analysis is intended to address this issue Although the feedback from reviewers ... to teach structural analysis and stress analysis, or theory of structures and strength of materials as they were frequently known, as two separate subjects where, generally, structural analysis...

Ngày tải lên: 20/06/2014, 14:06

... Associate Professor Wang Yue from Institute of Molecular and Cell (IMCB) and Assistant Professor J Sivaraman from Department of Biological Sciences (NUS), for guidance and discussions throughout ... project………………………………………………………40 1.7 Project III: Structural and functional analysis of hUpf1……………………….41 1.7.1 Previous functional and biochemical studies of Upf1……………… .41 1.7.2 Structural studies of Superfamily ... Mutational Analysis of Ski8…………………………………………… 87 3.2 Discussion………………………………………………………………… ….90 Chapter Structural and Functional Analysis of Dhh1 4.1 Results ……………………………………………………………………… 94 4.1.1 Structural...

Ngày tải lên: 14/09/2015, 22:22

... Structural and Stress Analysis Also available from Taylor & Francis Design of Structural Elements 2nd edition C Arya Examples in Structural Analysis W.M.C McKenzie Structural Analysis ... of structural and stress analysis provides analytical, numerical and experimental methods for determining the strength, stiffness and stability of load-carrying structural members 1.1 Forces and ... = where lAB , lBC and lCD are the respective deformations between A and B, B and C, and C and D The negative sign before lCD denotes compressive deformation between C and D From Equation (2.5):...

Ngày tải lên: 26/11/2015, 09:08

... of NPAs as highly nonpolar and completely isolated from the solvent Here we analyze the conformational and functional properties of Ag-NPA-1 as well as the tissue and cellular distribution of ... Ag-NPA-1 is a sensitive marker of the protein conformation and its emission reflects conformational changes after ligand binding Analysis of FRET from the singlet excited state of Trp17 to DAUDA, noncovalently ... obtained from Molecular Probes (Eugene, OR, USA) Retinol and fatty acids were obtained from Sigma (St Louis, MO, USA) IAEDANS and IANBD were dissolved in N,N-dimethyl formamide, the fatty acids and...

Ngày tải lên: 16/03/2014, 18:20

... dCK [7], and later on hTK1 [8,9] and TK from Ureaplasma urealyticum (Uu-TK) [9] However, Herpes simplex virus type thymidine kinase shares structural and sequential similarities with dNKs and does ... stacked between Phe18 and Phe34 each from adjacent subunits shown in yellow and orange, respectively The phos˚ phates are ligated by side-chain and main-chain atoms from the P-loop and P-b-hairpin ... deoxycytidine kinase (dCK) and TK1 and mitochondrial deoxyguanosine kinase (dGK) and TK2 Bacteria, however, have a smaller group of dNKs Most bacteria have TK that both sequence wise and structurally resembles...

Ngày tải lên: 23/03/2014, 09:21

... helix as suggested from the CD analysis and define the location of the helical region Structural restraints Several medium range NOEs, daN(i,i + 3); daN(i,i + 4) and dab(i,i + 3), and strong sequential ... additional allowed regions Structural restraints, rmsd values and the results from Ramachandran plot analysis are summarized in Table Fig Distribution of distance restraints and rmsd values for YopD278)300 ... Switzerland) and once with wash buffer without inhibitors The LcrH::His protein was eluted from the column in 50 mM sodium phosphate, pH 8, 300 mM NaCl, mM Imidazole SDS/PAGE analysis and Coomassie...

Ngày tải lên: 31/03/2014, 21:21

... "Head" in English and Vietnamese language in general and in idioms in particular 15 Chapter structural and semantic features of English and Vietnamese idioms referring to head 2.1 Structural features ... idioms referring to Head and a contrastive analysis with Vietnamese ones based on structural and semantic features We hope that this will be an interesting and useful teaching and learning material ... between English and Vietnamese in semantic features of idioms referring to head England and Vietnam are two different countries They obviously differ from each other in many faces England is considered...

Ngày tải lên: 20/12/2013, 18:33

... proteins contain FAD (or FMN) and a FMN or Fe–S protein, and shuttle electrons from NAD(P)H to the metal centres via their FNR and Fd ⁄ Fld domains [138,141–144] The Fld and FNR domains in diflavin ... interaction of Fld and PSI suggest similar functions for PsaC, PsaD and PsaE, but there are insufficient data to propose a Fld docking site [13,16,82,83] Analysis of different AnFd and SyFd mutants ... interaction and electron transfer with PSI [53,84,88–90] Many of these Fld mutants (T12V, E16Q, T56G, W57 replaced by K, R, F, L, A and Y, I59 replaced by A and K, Y94 replaced by A and F, N97K,...

Ngày tải lên: 18/02/2014, 11:20

... ranging from Caenorhabditis elegans and Drosophila to a large number of vertebrates [11] With all this information on p53, there is an excellent opportunity for structural calculations and the ... the protein that is not occupied by any atom from the protein and not accessible from the outside A pocket is a cleft into the protein with volume and depth above default values in ICM For an ... WAF1 and MDM2 seem to be slightly more sensitive to mutations and NOXA and p53R2 slightly less so This is indicated by the average activity of mutants in the central domain of 26% for WAF1 and...

Ngày tải lên: 18/02/2014, 11:20

... between R81 and P82 and between G90 and I91 A similar cis peptide between G93 and V94 is found in Tm SurE also Overall structural features of the protein St SurE is an aba sandwich protein and adopts ... archaic and thermophilic homologues The St SurE monomer consists of 13 b-strands, six a-helices and three 310-helices The core of the protein is made up of a nine-stranded b-sheet flanked by a1, a5 and ... are represented by pink, cyan, blue and yellow, respectively The tetrameric interactions are between the subunits A and C, and B and D, by way of the b hairpins and the loop, which connects b2 to...

Ngày tải lên: 18/02/2014, 14:20

... human and pufferfish (torafugu and spotted green pufferfish) IL-10 sequences Pufferfish and carp IL-10 genes, clustered together and distant from IL-20 and IL24, as recently determined from analysis ... (CAD62446); from spotted green pufferfish IL-10 (CAD 67773), IL-20 (AY294557) and IL-24 (AY294560); and from carp IL-10 (AB110780) Fig Expression patterns of the common carp IL-10 gene from unstimulated ... proteins from carp, torafugu and human The x-axis denotes the residue position and the y-axis represents hydrophobicity The hydrophobicity analysis was carried out according to the Kyte and Doolittle...

Ngày tải lên: 20/02/2014, 02:21

... mutagenesis MATERIALS AND METHODS Expression vector The FLS cDNA from satsuma mandarin fruits, C unshiu [30], was excised with EcoRI and XhoI from the Bluescript vector (Stratagene) and subcloned in ... Spinacia oleracea and Marah macrocarpa), hyoscyamine 6b-hydroxylase from Hyoscyamus niger, the iron-deficiency-specific proteins and from Hordeum vulgare; desacetoxyvindoline-4-hydroxylase from Catharanthus ... deoxycholate [40] and using bovine serum albumin as a standard Flavonol synthase (Eur J Biochem 269) 4137 and Matthiola incana), but functionality was only verified in case of Petunia and Arabidopsis...

Ngày tải lên: 21/02/2014, 03:20

... 5861 from loop connecting b3 and a and residues 8187 from loop connecting b4 and a3 from one subunit and the residues 114 and 128141 from b5 and a4- and a5-helices from the neighbouring subunit (Fig ... subunits from the neighbouring pentamer in a decamer The residues from three b-strands (b2, b3, and b4) together with the residues from three a-helices (a2, a3 and a5) and some residues from the ... residues and is composed in part by the residues donated from the closely related neighbouring monomer, i.e the residues 2628 from loop connecting b2 and a1, residues 5861 from loop connecting b3 and...

Ngày tải lên: 07/03/2014, 11:20

... formation depends upon contact of b-strand 10 from the C-terminal extensions of monomers A and D with b-strands and in the a-crystallin domain of monomers C and B, respectively (Fig 8) A more prominent ... activity decreased from R110G to Y116D, which were similar, and then to F112R Chaperone activities of p26 from Artemia [45] and E coli with citrate synthase were similar, whereas BSA and IgG at 1200 ... p26; however, the fluorescence intensities for p26 from bacteria and Artemia were similar (Fig 6A) This structural resemblance, and the functional analysis mentioned previously, indicate data obtained...

Ngày tải lên: 07/03/2014, 12:20