identifying errors in three dimensional protein models

... for computing the stacking (clusters) of cystines in the three- dimensional structure of proteins The level of stacking (clustering) between two cystines was established in the following way: the ... the same atom in the N-terminal cysteine residue in cystine B, CAa2 is the C-terminal cysteine residue in cystine A and CBa2 is the C-terminal cysteine residue in ˚ cystine B A distance of 7.5 A ... a-Cobratoxin ⁄ acetylcholine binding protein (AChB) a-Bungarotoxin ⁄ (WRYYESSLLPYPD) Neurotoxin-I j-Bungarotoxin N n oxiana B multicinctus 1.90 2.30 72 66 1110 (524) 1222 (583) B multicinctus L...

Ngày tải lên: 07/03/2014, 06:20

... approximate the uncertainty by taking the two end points on the calculated uncertainty curve and use the straight line containing those points as the uncertainty In this example, the uncertainty for the ... analyzing the change in the fringes (fringe counting displacement interferometer) The major sources of uncertainty—those affecting the actual wavelength— are the same for both methods The uncertainties ... surprisingly low concentrations [16] We avoid using solvents in any area where interferometric measurements are made This includes measuring machines, such as micrometers and coordinate measuring...

Ngày tải lên: 20/06/2014, 18:20

... the training set and 10000 examples for the test set For the microarray data, the examples are separated into training and test sets with 50 examples for the training set and the remaining for ... factors in (2) 5.4 Conclusion Owing to the peaking phenomenon, feature selection is a necessary part of classifier design in the kind of highdimensional, small-sample settings commonplace in bioinformatics, ... corresponding increase in regression with increasing sample size (see experiments 85 through 97 in Table C1 on the companion website) This increase has little practical impact because, as seen in (10),...

Ngày tải lên: 22/06/2014, 19:20

... MJ: Beta1 integrin inhibitory antibody induces apoptosis of breast cancer cells, inhibits growth, and distinguishes malignant from normal phenotype in three dimensional cultures and in vivo Cancer ... diagram showing how BM might be assembled at the surface of a cell or an acinus (a) Top: acinus surrounded by laminin-111 (green) Bottom: the laminin-111 polymerizes and engages integrins (blue) ... by a tumor grown in a mouse, and they contain many proteins in addition to type IV collagen and laminin-111 and other components that, like serum, can in uence cell behavior In addition, the...

Ngày tải lên: 06/08/2014, 19:21

... through integrin, and the integrin/mitogenactivated protein kinase (MAPK) pathway is activated to the same extent in both the LIPUS group and the control group The integrin/phosphatidylinositol kinase ... β-catenin antibody staining (a), (b) Anti-Ki67 antibody staining of week cultures (200× magnification) The nuclei are positively and β-catenin antibody staining stained with an anti-Ki67 antibody in ... cyclins Changes of proliferating cell nuclear antigen using MEK1 inhibitor and PI3K inhibitor The influence of the MEK1 inhibitor (PD98059) and of the PI3K inhibitor (LY294002) was judged in western...

Ngày tải lên: 09/08/2014, 10:23

... 25 minute washes in 10% Goat Serum in PBS The secondary antibodies were incubated for hours at RT or over night at 4°C After PBS rinsing, nuclear staining was performed with TOPRO-3(r) (Invitrogen, ... expressed in the branching structures, p63 showing nuclear staining throughout the structure (figure 3C), CK17 in the cytoplasm (shown together with E-cadherin in figure 3B) and CK14 showing strong ... expression of CK14 is interesting, showing individual CK14 positive cells interspersed throughout structures at earlier stages, while organizing in a linear fashion at the outer surface in the mature,...

Ngày tải lên: 12/08/2014, 11:23

... whereas they were skewed inferiorly in the SI direction Ninety three percent of the set-up deviations were within mm in all three directions The CTV to PTV margins were within mm in all directions This ... were skewed inferiorly in the SI direction Ninety three percent of the set-up deviations were within mm in all three directions Systematic and random errors Systematic (Σ) and random (σ) errors were ... of translational displacements in all three directions including mean and standard deviation Histogram of translational displacements in all three directions including mean and standard deviation...

Ngày tải lên: 09/08/2014, 10:21

... Boltzmann D2Q9 models in 2D coordinates Using the general method, three different axisymmetric lattice Boltzmann D2Q9 model A, B and C were derived through inserting different source terms into the ... considering the lattice effects in our derivation, all these models can mimic the 2D Navier-Stokes equation in the cylindrical coordinates at microscopic level In addition, to avoid the singularity ... global errors versus the radius of the inner cylinder in the Couette flow (m is the slope of linear fitting line) 186 Figure 8.4 Boundary condition and geometry of natural convection in a square...

Ngày tải lên: 11/09/2015, 14:36

... sign in the above equation indicates that the suction is towards the plate Due to this kind of injection velocity the flow remains three dimensional All the physical quantities involved are independent ... problem Consider the three dimensional flow of a viscous incompressible fluid past an infinite vertical porous plate embedded in a porous medium in presence of periodic suction A coordinate system is ... herein analyzes the effect of periodic suction on the three dimensional flow of a viscous incompressible fluid past an infinite vertical porous plate embedded in a porous medium The governing...

Ngày tải lên: 05/09/2013, 14:58

... thermophilic proteins contain more arginines on the protein surface than mesophilic proteins [36–38] The effect of the large-scale increase in the number of arginines was tested experimentally in T reesei ... C.J & Nussinov, R (2000) Factors enhancing protein thermostability Protein Eng 13, 179–191 39 Turunen, O., Vuorio, M., Fenel, F & Leisola, M (2002) Engineering of multiple arginines into the Ser/Thr ... believed to form Ôsticky patchesÕ on the protein surface that may lead to protein aggregation [16] In addition, introduction of a single tyrosine into the N-terminal region has been reported to improve...

Ngày tải lên: 20/02/2014, 23:20

... distortion in the feedback including sensory deficits, a reduction in motor command [40], or an increase in motor command noise, can lead to an increase in curvature Any inappropriate increase in mechanical ... line shows linear fitting of the data represented by the magenta triangles The dashed line shows linear fitting of the data represented by the open circles Osu et al Journal of NeuroEngineering ... measure we developed in this study assessed the median of the natural log of curvature (MedianLC) in the end-point trajectory during three- dimensional reaching By utilizing this measure, we were...

Ngày tải lên: 19/06/2014, 08:20

... cortical bone longitudinal modulus of elasticity increases with increase in strain rate by a factor of 1.5 for strain rate of 1500 compared to 1.0 (1/sec), thus explaining in part the greater stiffness ... potting of the ends could be used to test a specimen in all three modes of loading: axial compression, torsion and bending In addition the bending fixtures were capable of applying uniform 4-point ... ostectomized-instrumented equine radii It is the authors' opinion that the 3D loading-measuring system described in this manuscript is capable of creating "worst case" clinically relevant loading conditions,...

Ngày tải lên: 20/06/2014, 01:20

... circumferential strain using MRI tagging in normal and LBBB hearts,” Magnetic Resonance in Medicine, vol 57, no 3, pp 485–493, 2007 G J Klein, B W Reutter, and R H Huesman, “Non-rigid summing of gated ... which is presented in the Figure 4, line 2, column a In this image, the contraction movement is represented by different tones of red, indicating the contraction with varying intensities After ... hardly obtained even after CRT In the case of horizontal rotation mentioned in the former section, some Group2 patients had a high intensity in diastole The same patients had a high intensity in the...

Ngày tải lên: 21/06/2014, 19:20

... appropriate coating This is very crucial since fast printing processes, such as direct write methodologies, can be utilized instead of metal etching techniques A fast process, like inkjet printing, can ... feeding structure is an effective way for impedance matching FIGURE 3.12: Measured and simulated input resistance and reactance of the inkjet-printed RFID tag THREE- DIMENSIONAL PACKAGING IN MULTILAYER ... transmission line (18 ␮m thick) passing directly through the side of a bonded superstrate package stackup THREE- DIMENSIONAL PACKAGING IN MULTILAYER ORGANIC SUBSTRATES 21 FIGURE 3.10: Gain measurement...

Ngày tải lên: 21/06/2014, 22:20

... Lover results in a stronger input/output coupling and smaller Qext Then, the required kij is obtained against the variation of distance [dij in Fig 4.7(a)] for a fixed Qext at the input/output ... coupling spacing [d12 in Fig 4.7(a)] between the first and second resonators for the required k12 was determined from Fig 4.9(b) k23 and d23 are determined in the same way as k12 and d12 since ... described in [63] Feeding lines and slotted patch resonators were alternately positioned on different metal layers (feeding lines, 2nd resonator: M2; 1st resonator, 3rd resonator: M3) as shown in Fig...

Ngày tải lên: 21/06/2014, 22:20

... relationship between kjj+1 and internal slot width [SWint in Fig 5.2(a)] variation with the fixed slot length [SLint ≈ g /4 in Fig 5.2(a)] SWint was determined to be 0.261 mm corresponding to the required ... are determined by using a tuning analysis of HFSS full-wave simulator (L = 1.95 mm, W = 1.275 mm, H = 0.1 mm) 48 THREE- DIMENSIONAL INTEGRATION L W metal microstrip feedline SW coupling slots ... After determining the initial dimensions of the external/internal slots, the other design parameters such the cavity length and width [L and W in Fig 5.2(a)] using via walls are determined under...

Ngày tải lên: 21/06/2014, 22:20

... cavity filter (c) Intercoupling rectangular slot (d) Intercoupling cross slot CAVITY-TYPE INTEGRATED PASSIVES 69 The 3D overview, top view, intercoupling rectangular slot, and intercoupling cross slot ... the intercoupling structure in this study In the past, mode matching methods [70] and scattering matrix approaches [76] have been used to analyze the modal characterization of intercoupling discontinuities ... the intercoupling slots and dominated by the magnetic coupling It is worth noting that M13 is different from M32 since the magnitude of the magnetic dipole moment of each mode in a coupling slot...

Ngày tải lên: 21/06/2014, 22:20

... surface ring This fringing field along with the fringing field at the radiating edges of the patch antenna forms an antenna array in the E-plane The formed array acts as a broadside array with minimum ... soft surface (εr = 5.4) 77 78 THREE- DIMENSIONAL INTEGRATION and without the soft surface We can see that the electric field is indeed contained inside the soft surface ring It is estimated that the ... 76 THREE- DIMENSIONAL INTEGRATION FIGURE 6.1: Patch antenna surrounded by an ideal compact soft surface structure consisting of a ring of metal strip and a ring of shorting wall (Is...

Ngày tải lên: 21/06/2014, 22:20

... hobbies include basketball, ping-pong and travel Jong-Hoon Lee received the B.S Degree in electrical engineering from The Pennsylvania State University, University Park, with high honor in the spring ... spring of 2001 He joined the electrical engineering at The Georgia Institute of Technology, in the fall of 2001 and received an M.S degree in the fall of 2004 and a Ph.D in the summer of 2007 ... National Technical University in Athens, Greece, in 1992 and the M.S and Ph.D degrees in Electrical Engineering and Computer Science from the University of Michigan, Ann Arbor in 1993 and 1998 He is...

Ngày tải lên: 21/06/2014, 22:20

... information in the EEG signals are coded in frequency domain rather than time domain (reviewed in [16]), attention was focused on detecting frequency-specific interactions in EEG or MEG signals; for instance, ... modules come into consideration THREE- DIMENSIONAL PACKAGING IN MULTILAYER ORGANIC SUBSTRATES 13 3.2 RF MEMS PACKAGING USING MULTILAYER LCP SUBSTRATES In this section, the concept of packaging numerous ... appropriate coating This is very crucial since fast printing processes, such as direct write methodologies, can be utilized instead of metal etching techniques A fast process, like inkjet printing, can...

Ngày tải lên: 27/06/2014, 17:20