structure function relationships of sp b

... a phosphate of < /b> ribose diphosphate is stabilized by interactions with the x nitrogen of < /b> the guanidino group of < /b> residue R403 and the c carbonyl oxygen of < /b> residue N404 The 3¢-phosphate is stabilized ... an absorbance of < /b> 0.8 at 600 nm, expression of < /b> EcODC was induced by adding 0.5 mm isopropyl thio -b- dgalactopyranoside After 10 h of < /b> growth at 30 °C, corresponding to an absorbance at 600 nm of < /b> ... decarboxylase of < /b> E coli A B Fig Stereo views of < /b> the binding sites of < /b> EcODC for ADP (A) and PADP (B) The 2F0 ) Fc electron density of < /b> the ligands is contoured at 2.5 r Hydrogen bonds are shown as black...

Ngày tải lên: 06/03/2014, 11:20

... equation (Ipyr, indolepyruvate, Pyr, pyruvate, Bf, benzoylformate) Substrates Ipyr Pyr Bf 4-NO2-Bf 4-Cl-Bf 4-Br-Bf 4-F-Bf 4-C2H5-Bf 4-CH3-Bf 4-CH3O-Bf 20 3381 1646 48 19 617 111 127 1043 Km (relative) ... analysis of < /b> substrate specificity and cofactor binding of < /b> EcIPDC The enzymatic conversion of < /b> all substrates studied in this work (pyruvate, the native substrate of < /b> PDC, benzoylformate, the native substrate ... However, a weak substrate excess inhibition (Ki 164 ± 16 mM) was observed for pyruvate decarboxylation Examination of < /b> the decarboxylation of < /b> indolepyruvate by ScPDC and ZmPDC The ability of < /b> ScPDC and...

Ngày tải lên: 08/03/2014, 02:20

... peptides by thrombin 106 3.3.2 Inhibition of < /b> thrombin amidolytic activity by cleavage product, MH22 110 3.3.3 The inhibitory constant Ki of < /b> MH22 113 3.3.4 Inhibition of < /b> thrombin amidolytic activity by ... removal of < /b> backbone kink 178 Table 4.11 Thrombin inhibitory activity of < /b> DV23 and DV23K10R 179 Table 4.12 Optimization of < /b> thrombin-s-variegin interactions: Cterminal VAla22 substitution 183 Table ... 1HRT) (B) Haemadin-thrombin complex (PDB: 1E0F) (D) Boophilin-thrombin complex (PDB: 2ODY) (C) Ornithodorin-thrombin complex (PDB: 1TOC) E F (E) Rhodniin-thrombin complex (PDB: 1TBQ) (F) Triabin-thrombin...

Ngày tải lên: 14/09/2015, 14:11

... MLL1: a structure< /b> function < /b> perspective A Cleavage site Break point AT-Hooks CXXC PHD BD FYRN FYRC Win SET TAD 1- -3969 Cleavage by Taspase HCF 1SET Menin -3969 DPY30 Ash2L WDR5 CBP MOF RbBP5 B Fig ... portion of < /b> the MLL1 TAD bound to the KIX domain of < /b> the cAMP response element-binding (CREB) binding protein 2879 3762 -3969 3770 MLL1 TAD domain MLL1 Win motif c-Myb WDR5 CBP-KIX domain (CBP) [23], ... compilation ª 2010 FEBS M S Cosgrove and A Patel MLL1’s interaction to the KIX or CREB-binding domain of < /b> CBP [31] The KIX domain of < /b> CBP is a structural platform that is capable of < /b> binding several...

Ngày tải lên: 16/02/2014, 14:20

... FEBS Z.-C Ding et al Structure< /b> reactivity function < /b> study of < /b> GIF A1 B1 A2 B2 Fig (A1) and (A2) Simulated structure < /b> of < /b> the b- domain of < /b> rlMT2 (B1 ) and (B2 ) Predicted structure < /b> of < /b> the b- domain of < /b> ... N-terminus might contribute to the dynamics of < /b> the b- domain of < /b> hGIF However, the structure < /b> of < /b> the b- domain of < /b> hGIF remained unsolved by NMR spectroscopy because insufficient amounts of < /b> medium-range and ... or the a-domain of < /b> hMT1g [the b( MT3)-a(MT1) mutant] [23] It was found that the metal-binding ability and solvent accessibility of < /b> the Cd3S9 cluster of < /b> the b- domain of < /b> the b( MT3) -b( MT3) mutant decreased...

Ngày tải lên: 16/02/2014, 15:20

... subtype IC50 (nM) Method ˚ rmsd/resolution (A) 4/7 4/7 4/7 4/7 4/7 4/7 4/7 4/7 4/6 4/6 4/6 4/3 4/3 a 3b2 a a7, a 3b2 a a7, a 3b2 a a 3b2 , a 3b4 a a 3b2 b a7, a 3b2 , a 4b2 a a 6b2 b3, a 3b2 a a 3b2 , a7a a 3b4 a a 3b4 a ... Disulfide bond isomers of < /b> a-conotoxins (A) A schematic representation of < /b> the globular, ribbon and beads isomers possible in any of < /b> the a-conotoxins (B) The three-dimensional structure < /b> of < /b> native AuIB ... (ribbon and beads) forms were less active and more flexible than the native globular isomer The ribbon connectivity of < /b> AuIB has been synthesized and although the overall structure < /b> appears to be...

Ngày tải lên: 19/02/2014, 12:20

... the site of < /b> RBP synthesis, and the secretion of < /b> RBP into the blood is initiated by the binding of < /b> retinol In the bloodstream, RBP is bound to transthyretin with affinities in the range of < /b> 1.0 · ... eight b- strands, named A through H, that are connected by loops to form a sandwich of < /b> A 3D structures of < /b> other transthyretins B Fig The 3D structures of < /b> human transthyretin Ribbon diagrams of < /b> (a) ... is believed to be the most important distributor for T4 in the blood of < /b> humans [41] because of < /b> its association and dissociation rates for TH that are between those of < /b> albumin and thyroxine-binding...

Ngày tải lên: 07/03/2014, 00:20

... amino acids of < /b> the protein [3] Secondary structure < /b> of < /b> spinalin The conformational state of < /b> spinalin was analyzed by CD spectroscopy and fluorescence spectroscopy The CD spectrum of < /b> spinalin in ... Structure < /b> ⁄ function < /b> analysis of < /b> spinalin S Hellstern et al ture ⁄ function < /b> analysis of < /b> full-length native spinalin A structure-< /b> based homology screen revealed a similarity of < /b> the predicted spinalin ... Journal compilation ª 2006 FEBS Structure < /b> ⁄ function < /b> analysis of < /b> spinalin S Hellstern et al network of < /b> disulfide links In the case of < /b> spinalin, subdomain I shows a pattern of < /b> several GYGG repeating...

Ngày tải lên: 07/03/2014, 12:20

... (2000) Fluorescently labeled neomycin as a probe of < /b> phosphatidylinositol-4,5-bisphosphate in membranes Biochim Biophys Acta 1464, 35–48 Cabrera C, Gutierrez A, Blanco J, Barretina J, Litovchick ... percent of < /b> inhibition of < /b> 12G5 binding to the cells was calculated by the formula: 100 ) [(A ) B ⁄ C ) B) · 100]; where A is the MFI obtained in the presence of < /b> APACs and 12G5 mAb, B is the MFI obtained ... b- mAb only (55.56) c- mAb + µM Neam-r6 (9.6) d- mAb + 10 µM Neam-r6 (3.13) a c d b a- Isotype control (4.0) b- mAb only (55.56) c- mAb + µM Neo-r6 (14.8) d- mAb + 10 µM Neo-r6 (4.39) a d c b...

Ngày tải lên: 16/03/2014, 06:20

... regions of < /b> disorder in the ABDs of < /b> spinophilin and neurabin As shown in Fig 1, these programs also predicted a high degree of < /b> disorder in the ABDs of < /b> spinophilin and neurabin On the basis of < /b> these ... of < /b> the spinophilin and neurabin PDZ [22] and neurabin SAM [27] domains have been solved recently by NMR spectroscopy Spinophilin interaction with F-actin is regulated by phosphorylation of < /b> its ... portions of < /b> human neurabin-1 (HsNEB1), human spinophilin (HsNEB2) and rat spinophilin (RnNEB2), calculated using six different prediction software programs Random coil predictions (%) APSSP2 HsNEB1...

Ngày tải lên: 16/03/2014, 06:20

... i.e branching at the b- carbon atom classically considered to destabilize a-helices because of < /b> steric clashes The side chain of < /b> leucine differs from valine, isoleucine and threonine by having a branch ... absence of < /b> the branched b- carbon This may explain why the oligomerization and kinetic properties of < /b> V106L are the same as those of < /b> V106M [18] and other enzymes of < /b> the tetrameric group II (Table ... cells [43–45] Ó FEBS 2004 Effect of < /b> amino acid 106 on human TK1 (Eur J Biochem 271) 2255 The observations described above [42] extend our model [21] by showing that phosphorylation of < /b> TK1 is involved...

Ngày tải lên: 16/03/2014, 16:20

... (through the N-SH2 b sheet defined by strands bD¢, bE and bF) but its phosphopeptidebinding site (defined by the loops EF and BG) is not functional; by contrast, binding of < /b> a phosphopeptide to the ... Binding of < /b> an allosteric inhibitor of < /b> PTP 1B keeps the catalytic WPD-loop in the open conformation Structure < /b> of < /b> PTP 1B (cyan) in complex with the allosteric inhibitor 3-(3,5-dibromo-4-hydroxy-benzoyl)-2-ethyl-benzofuran-6-sulfonic ... both structural genomics (see above) and structure-< /b> based drug design efforts The state of < /b> structure-< /b> based development of < /b> membrane-permeable RPTP inhibitors (a focus of < /b> the pharmaceutical industry)...

Ngày tải lên: 30/03/2014, 04:20

... average structure < /b> of < /b> fowlicidin-1 (B) Stereo-diagrams of < /b> the backbone trace of < /b> the 20 lowest energy structures of < /b> fowlicidin-1, with residues 8–16 overlaid (C) Stereodiagrams of < /b> the backbone trace of < /b> ... final structures against an averaged structure < /b> resulted in a rmsd ˚ value of < /b> backbone of < /b> < 0.5 A (Table 1) Greater flexibility between the helices was revealed when only one 2584 I23 Hyd ro phob ic ... solution structure < /b> of < /b> the active domain of < /b> CAP18- a lipopolysaccharide binding protein from rabbit leukocytes FEBS Lett 370, 46–52 32 Terwilliger TC, Weissman L & Eisenberg D (1982) The structure < /b> of...

Ngày tải lên: 30/03/2014, 11:20

... and Tat Bru; both of < /b> which have been shown to be biologically active in the absence of < /b> reducing agents Therefore, it is probable that the different folding observed in the NMR study of < /b> Tat Z2 ... distribution, increasing the blood brain barrier (BBB) permeability [73] Tat also exerts a neurotoxic effect on hippocampal neurons by disinhibiting Ca2+-permeable N-methyl-D-aspartate (NMDA) receptors ... locomotion by engaging the alpha beta and alpha v beta integrins and by mobilizing sequestered basic fibroblast growth factor Blood 1999, 94:663-672 Barillari G, Gendelman R, Gallo RC, Ensoli B: The...

Ngày tải lên: 12/08/2014, 23:21

... methyl-CpG-binding domain (MBD) (Jorgensen 2004) Binding of < /b> methyl CpG binding proteins physically obstructs the basal transcription machinery (Hattori 2004) Mbd1 is a member of < /b> the subfamily of < /b> MBD ... binding to each has been shown to be inhibited by methylation (Singal 1999) Methylation of < /b> the promoter of < /b> the neurofibromatosis gene, NF1, interferes with Creb and Sp1< /b> transcription factor binding ... absence of < /b> Cfp1 by clonogenic survival assays DNA damage accumulation was analyzed by accumulation of < /b> H2AX-γ by Western blot analysis and platinum incorporation onto DNA by atomic absorption spectroscopy...

Ngày tải lên: 24/08/2014, 11:05

... properties of < /b> the wt-VAPB MSP domain 39 3.1.2 Stability of < /b> the wt-VAPB MSP domain 41 3.1.3 Binding activity of < /b> the wt-VAPB MSP domain 41 3.1.4 Crystal structure < /b> of < /b> the wt-VAPB MSP domain 42 Studies ... consequence of < /b> the Thr46Ile mutation 52 3.3.2 Residue specific conformational properties of < /b> VAPB (T46I) 52 3.3.3 Stability of < /b> VAPB (T46I) MSP domain 54 3.3.4 Binding activity of < /b> VAPB (T46I) MSP domain ... model of < /b> VAPB based on the nematode MSP dimer structure < /b> (PDB: 1MSP) As shown in figure 2, the Proline residue at position 56 of < /b> VAPB creates an S-shaped loop between two short stretches of < /b> β-strand...

Ngày tải lên: 12/10/2015, 17:34

... groups of < /b> human SDRs 53 Figure 13: The location of < /b> the conserved and variable residues in the template structure < /b> of < /b> group of < /b> human SDR was identified by Talana 54 LIST OF < /b> TABLES Table 1: PDB ... sequences of < /b> human SDR enzymes were collected from NCBI-BLAST (http://blast.ncbi.nlm.nih.gov/) Human SDR protein structures were collected RCSB Protein Data Bank (PDB) (http://www.rcsb.org/pdb/home/home.do) ... individual specificity highlights the more variable regions By investigating both types of < /b> specificity, our results may be of < /b> better use for future work on developing inhibitors that can be directed...

Ngày tải lên: 23/10/2015, 15:38

... limits of < /b> detection of < /b> the experimental procedures Addition of < /b> phosphate or phosphite restored phosphorylase activity, as shown in Fig 5A ,B, respectively The time course of < /b> formation of < /b> phosphate ... phosphorylase II Mode of < /b> binding of < /b> pyridoxal 5Â-phosphate and analogs of < /b> pyridoxal 5Â-phosphate to apophosphorylase b and the aggregation state of < /b> reconstituted phosphorylase proteins Biochemistry 11, ... (1994) A study of < /b> binary complexes of < /b> Escherichia coli maltodextrin phosphorylase: a-D-glucose 1-methylenephosphonate as a probe of < /b> pyridoxal 5Â-phosphatesubstrate interactions Biochim Biophys Acta...

Ngày tải lên: 19/02/2014, 16:20

... the plasma membrane and intracellular membranes (reviewed in [5]), rapid increases of < /b> [Ca2+]i can Second messenger function < /b> of < /b> cADPR be achieved by increasing the open probability of < /b> Ca2+ channels, ... (FKBP 12.6, calstabin2) was found to bind cADPR and to mediate responsiveness of < /b> RyR towards cADPR [35,36] The data support a model in which binding of < /b> FKBP 12.6 to RyR decreases its open probability, ... whereas binding of < /b> cADPR or FK506 to FKBP 12.6 weakens the interaction between FKBP 12.6 and RyR, thereby resulting in an increased open probability of < /b> RyR Other studies have shown that in specific...

Ngày tải lên: 20/02/2014, 01:20

... shows the structure < /b> of < /b> BDD (C) Eect of < /b> substrate (BAEE) on the time course of < /b> inactivation of < /b> ChC by BDD (pH 7.6, 25 C) No BDD (h); BDD, 16.97 lM (w); BDD, 16.97 lM in the presence of < /b> mM BAEE (r) ... to caspases towards the C terminus 990 N E Labrou and D J Rigden (Eur J Biochem 271) ể FEBS 2004 Fig Determinants of < /b> P1 substrate specicity in (A) clostripain (specic for Arg) (B) caspase (specic ... [12] Our database searches using PSI-BLAST [24], in both GenBank and Unnished Microbial Genome databases at the NCBI (http://www.ncbi.nlm.nih.gov/blast/), initially located, ignoring obviously partial...

Ngày tải lên: 23/03/2014, 12:20