combining cryo em and x ray crystallography to study membrane protein structure and function
Báo cáo khoa học: Determination of thioxylo-oligosaccharide binding to family 11 xylanases using electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry and X-ray crystallography pot
Ngày tải lên :
07/03/2014, 17:20
... A and B Parameters of the measurement and renement statistics for the CTXS-Xyl5-Me complex are summarized in Table Atomic co-ordinates for the crystal structures of TRX I, TRX II, CTX, and CTXS-Xyl5-Me ... ă Thioxylo-oligosaccharide binding to xylanases Table The most abundant isotopic masses for TRX I, TRX II and CTX xylanases and their noncovalent thioxylo-oligosaccharide inhibitor complexes The ... power and mass accuracy For instance, proteinligand [57], proteincarbohydrate [58,59], proteinpeptide Fig Structures of thioxylo-oligosaccharide inhibitors From top to bottom: S-Xyl5-Me, S-Xyl4-Me,...
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Tài liệu Báo cáo khoa học: Molecular determinants of ligand specificity in family 11 carbohydrate binding modules – an NMR, X-ray crystallography and computational chemistry approach doc
Ngày tải lên :
18/02/2014, 17:20
... those protons very close to the protein (protons H2 and H6 from subunits b to e) and those other protons that, in spite of having a STD signal, are more distant from the protein Fig Structure ... Determinants of ligand specificity in CtCBM11 identify which atoms of the ligand are closer to the protein when the complex is formed (epitope mapping) Identification and mapping of the epitopes can be ... compared to aHa1, which may indicate a higher affinity of the protein for the b form STD-NMR To understand how CtCBM11 distinguishes and selects the different ligands, it is extremely important to FEBS...
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Báo cáo khoa học: The effect of replacing the axial methionine ligand with a lysine residue in cytochrome c-550 from Paracoccus versutus assessed by X-ray crystallography and unfolding ppt
Ngày tải lên :
07/03/2014, 17:20
... misligated heme species can be readily identified by 1H NMR Hyperfine shifted resonances belonging to protons of heme substituents are extremely sensitive to the chemical nature of the axial ligands to ... ligand to two different backbone substructures of the protein (helix 3, V80 and the ligand loop, F102; Fig 4B) Fig Average main-chain temperature factors vs residue number for the various structures ... Chembiochem 6, 747–758 12 Diederix REM, Ubbink M & Canters GW (2002) Peroxidase activity as a tool for studying the folding of c-type cytochromes Biochemistry 41, 13067–13077 13 Diederix REM, Ubbink...
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Báo cáo khoa học: X-ray crystallography, CD and kinetic studies revealed the essence of the abnormal behaviors of the cytochrome b5 Phe35fiTyr mutant pdf
Ngày tải lên :
08/03/2014, 10:20
... complexes formed between cytochrome b5 and subunits of methemoglobin J Biol Chem 258, 7369–7373 Mathews, F.S & Czerwinski, E.W (1976) Cytochrome b5 and Cytochrome b5 Reductase from a Chemical and X- ray ... of heme derivative in the solution; at this stage the heme was not totally released from the protein heme pocket into the aqueous environment and part of the low-spin and six-coordinated heme ... data up to 1.8 A were used for structural refinement at the CNS refinement stage A random sample of 10% of the X- ray data was excluded from the refinement and was taken as the test data set, and the...
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Báo cáo Y học: Determinants of the inhibition of a Taiwan habu venom metalloproteinase by its endogenous inhibitors revealed by X-ray crystallography and synthetic inhibitor analogues pdf
Ngày tải lên :
08/03/2014, 23:20
... Biochem 269) are grouped in a superfamily of metzincin which exhibits some typical structural features, such as the Met-turn and active-site consensus HExxHxxGxxH sequence [15–17] Some organisms and ... interpretation of protein structures: total volume, group volume distributions and packing density J Mol Biol 82, 1–14 49 Bjarnason, J.B & Fox, J.W (1989) Hemorrhagic toxins from snake venoms Toxin Rev ... R-factor and Rfree were used to monitor the progress of structural refinement Ó FEBS 2002 Inhibition of a SVMP by its endogenous inhibitors (Eur J Biochem 269) 3049 Table Data collection and refinement...
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Báo cáo khoa học: X-ray crystallography and structural stability of digestive lysozyme from cow stomach doc
Ngày tải lên :
23/03/2014, 04:21
... digestive and other nondigestive lysozymes In this study, we obtained recombinant bovine stomach lysozyme (BSL2), the most highly expressed lysozyme in the cow stomach X- ray crystallography and some ... phosphorescence study of enzyme flexibility and unfolding in laboratory-evolved thermostable esterases Biochemistry 39, 4658–4665 Vihinen M (1987) Relationship of protein flexibility to thermostability Protein ... to pepsin The replacement of residue 21 could also be an adaptation to stabilize this region Experimental procedures Expression and purification of BSL2 In an Escherichia coli expression system,...
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Báo cáo khoa học: Structural flexibility in Trypanosoma brucei enolase revealed by X-ray crystallography and molecular dynamics pdf
Ngày tải lên :
23/03/2014, 07:20
... PEP and PAH_1 structures is shown in Fig Unexpected variability in inhibitor complex structures Comparison of the substrate and inhibitor complexes shows that the His156-out and His156-in structures ... III or IV in the sulfate_1 and sulfate_2 structures, respectively Fig (A) Projections of the six new crystal structures and molecular dynamics trajectories on to EVs and resulting from the essential ... these structures with the previously published sulfate-bound structure, refined to ˚ 2.35 A, and containing Zn2+ ions bound to sites I and III [10], which we refer to here as sulfate_1 The new structures,...
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Báo cáo khoa học: Structural function of C-terminal amidation of endomorphin Conformational comparison ofl-selective endomorphin-2 with its C-terminal free acid, studied by 1 H-NMR spectroscopy, molecular calculation, and X-ray crystallography pot
Ngày tải lên :
30/03/2014, 20:20
... 164 x, y,z x +1,y,z x +1,y,z 1 -x, y +1 ⁄ 2,-z x, y,z x, y,z x, y,z x, y,z x- 1,y,z 1 -x, y-1 ⁄ 2,1-z x, y,z x, y +1,z x, y +1,z x, y-1,z x, y-1,z x, y,z 1 -x, y-1 ⁄ 2,1-z x, y,z 1 -x, y +1 ⁄ 2,-z x, y +1,z x, y,z x, y-1,z ... endomorphin-2 and its C-terminal free acid Table Temperature coefficients (Dd ⁄ DT, p.p.b.ÆK)1) of chemical shift changes of NH and OH protons Tyr1 NH and OH protons (EM2 and EM2 OH) and Phe4OH proton (EM2 OH) ... ˚ ˚ (1.6 to 5.0 A), medium (1.6 to < 3.5 A), and strong (1.6 to 2.6 A) Proton i TFE trans EM2 cis EM2 H2O (pH 2.7) trans EM2 cis EM2 H2O (pH 5.2) trans EM2 cis EM2 DPC (pH 3.5) trans EM2 DPC (pH...
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fragment based drug discovery and x-ray crystallography
Ngày tải lên :
29/05/2014, 23:54
... fragments and advancing them to the clinic Both NMR and X- ray crystallography are capable of providing detailed structural data, but as X- ray crystallography tools have increased in speed and accessibility ... Potent and Selective BACE-1 Inhibitors Daniel F Wyss, Yu-Sen Wang, Hugh L Eaton, Corey Strickland, Johannes H Voigt, Zhaoning Zhu, and Andrew W Stamford 83 Combining Biophysical Screening and X- Ray ... screening, or TINS, which relies on ligands binding to a protein that has been immobilized onto resin [34] Appealingly, this method seems to be applicable to membrane proteins, which are generally challenging...
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Báo cáo vật lý: "ATTENUATION STUDIES ON DRY AND HYDRATED CROSS-LINKED HYDROPHILIC COPOLYMER MATERIALS AT 8.02 TO 28.43 keV USING X-RAY FLUORESCENT SOURCES" ppt
Ngày tải lên :
07/08/2014, 14:20
... X- ray photons from the tube pass through a mm diameter collimator towards the target The target atoms are excited causing them to produce XRF photons unique to the element of the target The XRF ... industrial Xray machine It was water-cooled and could produce X- radiation continuously The tube assembly type was a Comet ceramic X- ray tube assembly MXR160/0.4–3.0 The tube generator was a Pantak ... collimators before reaching the detector Samples are placed between the second and the third collimators Due to laboratory space constraint, the angle between the incident photon beam and the XRF...
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Báo cáo y học: "Application of Small Angle X-ray Scattering (SAXS) for Differentiation between Normal and Cancerous Breast Tissue"
Ngày tải lên :
02/11/2012, 11:08
... pulse, to process and store the data in memory and finally to display the contents of the processed data in the form of counts against channel number Channel number was converted into photon energy ... MI, Elshemey WM Low angle X- ray scattering from spices Radiation Physics and Chemistry 2002; 64: 267-271 Evans SH, Bradley DA, Dance DR, Bateman JE, Jones CH Measurement of small angle photon scattering ... possibly due to the angular dispersive technique used by Keyrilainen et al Conclusion Measurements of coherently scattered X- ray photons can be used to identify breast disease In this study using...
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Tài liệu Characterization of the Polymorphic Behavior of an Organic Compound Using a Dynamic Thermal and X-ray Powder Diffraction Technique pptx
Ngày tải lên :
14/02/2014, 03:20
... calorimetry (DSC); X- ray powder diffraction (XRPD); combined, simultaneous, and dynamic differential scanning calorimetry /X- ray powder diffraction (DSC/XRPD); and high performance liquid chromatography ... analysis The XRPD patterns were collected using a Siemens D-500 automated powder diffractometer equipped with a Co X- ray tube source, primary beam monochromator, and a position sensitive detector (PSD) ... salt (25.00 g, as mixture of Form I and Form III) and 300 g of acetone The resulting slurry was heated to reflux for 23 h The stirred slurry was allowed to cool to ambient temperature The solids...
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Tài liệu Báo cáo khoa học: X-ray crystallographic and NMR studies of pantothenate synthetase provide insights into the mechanism of homotropic inhibition by pantoate docx
Ngày tải lên :
16/02/2014, 09:20
... the pantoate-bound form of nPS using X- ray crystallography, as described below A Solution and refinement of the structure using X- ray crystallography B The crystal structure of the pantoate–nPS ... atom of Asp152 is hydrogen-bonded via one water molecule to the O3 atom of pantoate, and via two water molecules to the O4 atom of pantoate The Ne atom of His37 is hydrogen-bonded to the O4 atom ... Fig Protein ligand and water-mediated protein ligand hydrogen bond interactions (broken lines) that stablize the pantoate molecules in site I and site II of nPS Oxygen atoms of pantoate and water...
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Tài liệu Báo cáo khoa học: Destabilization of psychrotrophic RNase HI in a localized fashion as revealed by mutational and X-ray crystallographic analyses pdf
Ngày tải lên :
18/02/2014, 13:20
... residues 29, T34 and E131 are shown The hydrogen bonds between N29 and Oc and T34 and Oc, and between N29 and Nd and E131 and Oe2, in the wild-type protein are shown as green broken lines, and the ion ... bonds between D39 and Od1 and Q149 and Ne, and between D39 and Od2 and Q149 and Ne, in the wild-type protein are shown as green broken lines together with the distances For the structure around ... of the protein, and a and b represent the a helix and b strand, respectively The side-chains of the mutated and parent amino acid residues at the six mutation sites are shown D39 ⁄ G39 and M76...
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Tài liệu Báo cáo khoa học: NMR structure of AII in solution compared with the X-ray structure of AII bound to the mAb Fab131 pptx
Ngày tải lên :
20/02/2014, 23:20
... superimposed on the X- ray structure (dark blue colour) and (B) structure alignment of the fragment 4–7 of the 13 ensemble structures of AII to the fragment 3–6 of the X- ray structure of AII Residue ... Rev Biochem 63, 101–132 Kuhlbrandt, W & Gouaux, E (1999) Membrane proteins Curr Opin Struct Biol 9, 445–447 Burgen, A.S., Roberts, G.C & Feeney, J (1975) Binding of flexible ligands to macromolecules ... differences between the two structures Table Average backbone atomic root mean square positional differences between the X- ray structure of AII and the ensemble of 13 AII calculated structures Superposition...
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Tài liệu Báo cáo Y học: The solution structure and activation of visual arrestin studied by small-angle X-ray scattering pot
Ngày tải lên :
22/02/2014, 07:20
... Kd and k were varied to fit the experimental data ð5Þ ð6Þ nm)1 With a 3-m sample–detector distance, useful data began at an S value of 0.04 nm)1 and the linear Guinier region extended to approximately ... were fitted to the data using weighted linear least squares as implemented in the program OTOKO [20] (B) Identical to (A), except expanded in the region < S < 0.09 nm)1 3804 B H Shilton et al ... not have to be covalently bound to rhodopsin: a short, soluble phosphopeptide corresponding to the C-terminus of rhodopsin is sufficient to ÔactivateÕ arrestin and allow it to bind to photoactivated...
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Báo cáo Y học: Boar salivary lipocalin Three-dimensional X-ray structure and androstenol/androstenone docking simulations pot
Ngày tải lên :
17/03/2014, 17:20
... SAL X- ray structure in ribbon representation The helix is in red, strands are blue and turns or coil are yellow The GlcNAc residue bound to Asn53 is in white ball -and- stick, and the serendipitous ... in the Protein Data Bank at RCSB (http://www.rcsb.org/pdb/) under entry G6 Docking experiment with androstenol and androstenone The previously identified natural ligands androstenol and androstenone ... to fully understand the structure of these soluble proteins and try to identify regions where interaction with membrane- bound receptors could occur In this paper, we report the structure of the...
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Báo cáo khoa học: X-ray crystallographic and enzymatic analyses of shikimate dehydrogenase from Staphylococcus epidermidis pot
Ngày tải lên :
30/03/2014, 02:20
... central six-strand mixed b sheet (b2, b1, b3, b5, b6 and b4; b5 is antiparallel to the others) flanked by three a-helices (a1, a9 and a8) on the inner side and by two a-helices (a2 and a3) and two ... unliganded enzyme structures, the crystallographic analysis of SDH in complex with cofactor, and of even ternary enzyme–cofactor–substrate complexes, shedsnew light on the catalytic mechanism and ... 1P74, 1WXD, 2EGG, 2HK7, 2HK8 and 2NLO), (b) binary complex bound with either cofactor (1NPD, 1NVT, 1NYT, 1O9B, 1P77, 1VI2 and 2CY0) or substrate (2D5C, 2GPT and 2O7Q) and (c) inactive (2HK9_A and...
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handbook of x ray spectrometry revised and expanded by rene van grieken
Ngày tải lên :
10/04/2014, 18:53
... x2 À x ; x x x3 > h ib4 > > : f14 x; ZÞ ¼ f13 x3 ; ZÞ x ; x x x4 x3 where < f21 x; ZÞ ¼ a expðÀb1 x þ ðZ À aÞ expðÀcxÞ; x x1 x x x2 F2 x; ZÞ ¼ f22 x; ZÞ ¼ f21 x1 ; ZÞ exp½Àb2 x1 À x ; ... analytical functions to calculate F (x, Z): x x1 > f11 x; ZÞ ¼ a expðÀb1 x þ ðZ À aÞ expðÀcxÞ; > > < f12 x; ZÞ ¼ f11 x1 ; ZÞ expðÀb2 x1 À x ; x x x2 ð74Þ F1 x; ZÞ ¼ f13 x; ZÞ ¼ f12 x2 ; ZÞ exp½Àb3 ... (1996): X > < s1 x; ZÞ ¼ di ½exp x À 1i ; x xi S x; ZÞ ¼ i¼1 > : s2 x; ZÞ ¼ ½Z À s1 x; ZÞ À t2 g1 x þ t2 g2 x þ s1 x1 ; ZÞ x1 < x ð66Þ where g1 x ¼ À exp½t1 x1 À x and g2 x ¼ À exp½t3...
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