Correlating heritable traits with specific gene products.
... As opposed to protein homology, functionally related genes may also be revealed by homology in the DNA sequence of their promoters. Gene expression profiling on DNA microarrays has revealed the co-regulation of functionally related genes. In principle this should be reflected by presence of very sim ...
... As opposed to protein homology, functionally related genes may also be revealed by homology in the DNA sequence of their promoters. Gene expression profiling on DNA microarrays has revealed the co-regulation of functionally related genes. In principle this should be reflected by presence of very sim ...
The Macromolecular X-ray Crystallography (MX) ESRF Tutorial
... resolution limit. Armed with this information we derive a data collection strategy which will maximize both the resolution and completeness of the data set. The method we use is to rotate the crystal by a small angle, typically 1 degree, and record the X-ray diffraction pattern. If the diffraction p ...
... resolution limit. Armed with this information we derive a data collection strategy which will maximize both the resolution and completeness of the data set. The method we use is to rotate the crystal by a small angle, typically 1 degree, and record the X-ray diffraction pattern. If the diffraction p ...
Structure determination by X
... all over the whole molecule. If the fitting suddenly becomes bad in some region, it may indicate that something wrong with the fitting. Missing density is much better than extra density. It’s rarely seen that there is a blob of extra density for Gly, Ala or Pro residue. The model should make chemica ...
... all over the whole molecule. If the fitting suddenly becomes bad in some region, it may indicate that something wrong with the fitting. Missing density is much better than extra density. It’s rarely seen that there is a blob of extra density for Gly, Ala or Pro residue. The model should make chemica ...
Description: Desmin is one of the earliest protein markers for muscle
... and is the result of a mutation in the gene that codes for desmin which prevents it from forming protein filaments, instead forming aggregates of desmin and other proteins throughout the cell. Recently, mutations were identified in patients suffered by an arrhythmogenic right ventricular cardiomyopa ...
... and is the result of a mutation in the gene that codes for desmin which prevents it from forming protein filaments, instead forming aggregates of desmin and other proteins throughout the cell. Recently, mutations were identified in patients suffered by an arrhythmogenic right ventricular cardiomyopa ...
• The Neuronal Membrane at Rest • The cast of chemicals • The
... 4. If the concentration difference across the membrane is known for an ion, an equilibrium potential can be ...
... 4. If the concentration difference across the membrane is known for an ion, an equilibrium potential can be ...
Final Exam KEY
... d. Notochord cells during neurulation. B, H H. Derived from mesoderm e. A cell that has rhesus factor (Rh) in its membrane. C, D, H *Note: We also accepted "B" for part c (if chosen instead of C). Although B-cells are considered differentiated cells, it would have been reasonable to choose pluripote ...
... d. Notochord cells during neurulation. B, H H. Derived from mesoderm e. A cell that has rhesus factor (Rh) in its membrane. C, D, H *Note: We also accepted "B" for part c (if chosen instead of C). Although B-cells are considered differentiated cells, it would have been reasonable to choose pluripote ...
The Plasma Membrane: Structure and Function
... Molecules are moved out of the cell by vesicles that fuse with the plasma membrane. This is how many hormones are secreted and how nerve cells communicate with one another. ...
... Molecules are moved out of the cell by vesicles that fuse with the plasma membrane. This is how many hormones are secreted and how nerve cells communicate with one another. ...
Lipid modifications of proteins – slipping in and out of membranes
... and therefore increases the affinity of modified proteins to membranes. But unlike other lipid modifications, palmitoylation is a dynamic and readily reversible process. This reversibility has attracted considerable attention because it provides a potential regulatory mechanism for shuttling protein ...
... and therefore increases the affinity of modified proteins to membranes. But unlike other lipid modifications, palmitoylation is a dynamic and readily reversible process. This reversibility has attracted considerable attention because it provides a potential regulatory mechanism for shuttling protein ...
phase transition
... Eggs, turkeys, pies, and cakes all have complicated phase behavior. 1) Explain what those transitions are 2) Why they occur 3) How to control them All to make you a better chef ...
... Eggs, turkeys, pies, and cakes all have complicated phase behavior. 1) Explain what those transitions are 2) Why they occur 3) How to control them All to make you a better chef ...
Biophysics 101 Genomics and Computational Biology
... and prediction of transmembrane helices. Jayasinghe et al. Backbone constraint, identifies TM helices of membrane proteins with an accuracy greater than 99 %. (& energetics of salt-bridge formation. Falsely predicts 17 to 43 % of a set of soluble proteins to be MPs, depending upon the hydropathy sca ...
... and prediction of transmembrane helices. Jayasinghe et al. Backbone constraint, identifies TM helices of membrane proteins with an accuracy greater than 99 %. (& energetics of salt-bridge formation. Falsely predicts 17 to 43 % of a set of soluble proteins to be MPs, depending upon the hydropathy sca ...
Enzyme - Northwest ISD Moodle
... Recall: Summarize what you did yesterday. Explain: Explain the purpose. Results: Describe the results and what they mean. Uncertainties: Describe what you are still unsure about. ...
... Recall: Summarize what you did yesterday. Explain: Explain the purpose. Results: Describe the results and what they mean. Uncertainties: Describe what you are still unsure about. ...
lecture 5
... “Simulations of CI2 in 8 M urea indicate that urea promotes unfolding by both indirect and direct mechanisms. Direct urea interactions consisted of hydrogen bonding to the polar moieties of the protein, particularly peptide groups, leading to screening of intramolecular hydrogen bonds. Solvation of ...
... “Simulations of CI2 in 8 M urea indicate that urea promotes unfolding by both indirect and direct mechanisms. Direct urea interactions consisted of hydrogen bonding to the polar moieties of the protein, particularly peptide groups, leading to screening of intramolecular hydrogen bonds. Solvation of ...
Automated Model-Building with TEXTAL
... Till May 2005: TB Structural Genomics Consortium members only Recently open to the public users upload data; processed on server; can download results 120 users from 70 institutions in 20 countries ...
... Till May 2005: TB Structural Genomics Consortium members only Recently open to the public users upload data; processed on server; can download results 120 users from 70 institutions in 20 countries ...
Paper - Journal of Environmental Biology
... important subcellular location prediction of newly identified proteins. Using N-terminal sequence information only, it categorize between proteins destined for the mitochondrion, the secretory pathway, the chloroplast, and "other" localizations with a achievement rate of 85% (plant) or 90% (non-plan ...
... important subcellular location prediction of newly identified proteins. Using N-terminal sequence information only, it categorize between proteins destined for the mitochondrion, the secretory pathway, the chloroplast, and "other" localizations with a achievement rate of 85% (plant) or 90% (non-plan ...
BD Pharmingen™ Alexa Fluor® 647 Mouse anti-Human Ki-67
... is typically ~10,000 cells cultured in a well of a 96-well imaging plate. Alexa Fluor is a registered trademark of Molecular Probes, Inc., Eugene, OR. The Alexa Fluor®, Pacific Blue™, and Cascade Blue® dye antibody conjugates in this product are sold under license from Molecular Probes, Inc. for res ...
... is typically ~10,000 cells cultured in a well of a 96-well imaging plate. Alexa Fluor is a registered trademark of Molecular Probes, Inc., Eugene, OR. The Alexa Fluor®, Pacific Blue™, and Cascade Blue® dye antibody conjugates in this product are sold under license from Molecular Probes, Inc. for res ...
Methods S1.
... Danvers, United States) diluted in 0.1% Tween Odyssey buffer. After washing in fresh, cold TBS-T 3x 5 min, the membrane was subjected to the appropriate secondary antibody for 1 hour at room temperature. Immuno-reactive bands on the membrane were visualized by the two channel laser system of the Ody ...
... Danvers, United States) diluted in 0.1% Tween Odyssey buffer. After washing in fresh, cold TBS-T 3x 5 min, the membrane was subjected to the appropriate secondary antibody for 1 hour at room temperature. Immuno-reactive bands on the membrane were visualized by the two channel laser system of the Ody ...
Chapter Summary - OHS General Biology
... ionic bonds between charged R groups, and hydrophobic interactions and van der Waals interactions among hydrophobic R groups. ○ Strong covalent bonds called disulfide bridges that form between the sulfhydryl groups (SH) of two cysteine monomers act to rivet parts of the protein together. Quaternary ...
... ionic bonds between charged R groups, and hydrophobic interactions and van der Waals interactions among hydrophobic R groups. ○ Strong covalent bonds called disulfide bridges that form between the sulfhydryl groups (SH) of two cysteine monomers act to rivet parts of the protein together. Quaternary ...
lausanne_poster2010.v2
... De novo prediction of protein tertiary structure on the basis of amino acid sequence remains one of the outstanding problems in biophysical chemistry. Protein structure prediction using homology modeling has been one of the most popular technique to construct atomic resolution model of the target pr ...
... De novo prediction of protein tertiary structure on the basis of amino acid sequence remains one of the outstanding problems in biophysical chemistry. Protein structure prediction using homology modeling has been one of the most popular technique to construct atomic resolution model of the target pr ...
Method S1.
... Glutathione disulfide reductase activity assay, based on GSH reduction of 5,5’-dithiobis-(2nitrobenzoic acid) (DTNB), was carried out according to Smith et al. (1988) with minor modifications. Assay mixture (1 ml) containing 0.14 mM NADPH, 0.43 mM GSSG, 0.45 mM DTNB, and cell-free sample (20-30 µl; ...
... Glutathione disulfide reductase activity assay, based on GSH reduction of 5,5’-dithiobis-(2nitrobenzoic acid) (DTNB), was carried out according to Smith et al. (1988) with minor modifications. Assay mixture (1 ml) containing 0.14 mM NADPH, 0.43 mM GSSG, 0.45 mM DTNB, and cell-free sample (20-30 µl; ...
Olfactory receptors for a smell sensor
... taken representative of the entire sample. Crosses pertain to experiments carried out in the absence of the specific odorant octanal, empty and full squares pertain to the different concentrations of the odorant as reported in the figure. Within our model, the Nyquist plots are obtained by using as ...
... taken representative of the entire sample. Crosses pertain to experiments carried out in the absence of the specific odorant octanal, empty and full squares pertain to the different concentrations of the odorant as reported in the figure. Within our model, the Nyquist plots are obtained by using as ...
Lecture 5
... Subset of turn-lovers. Glycine is special because it is so flexible, so it can easily make the sharp turns and bends needed in a b-turn. Proline is special because it is so rigid; you could say that it is pre-bend for the b-turn. Aspartic acid, asparagine, and serine have in common that they have sh ...
... Subset of turn-lovers. Glycine is special because it is so flexible, so it can easily make the sharp turns and bends needed in a b-turn. Proline is special because it is so rigid; you could say that it is pre-bend for the b-turn. Aspartic acid, asparagine, and serine have in common that they have sh ...
The phosphatidylinositol transfer protein RdgBβ binds 14-3
... (monoclonal antibody) anti-HA (haemagglutinin) [HA-Probe (F7)] (sc-7392). The mAb anti-FLAG (DDK) was obtained from OriGene Technologies (TA50011) and the pAb anti-ubiquitin (U5379) was from Sigma–Aldrich. An anti-PITPNC1 pAb was obtained from Orbigen (PAB-02250) and the anti-ATRAP mAb (ab57555) was ...
... (monoclonal antibody) anti-HA (haemagglutinin) [HA-Probe (F7)] (sc-7392). The mAb anti-FLAG (DDK) was obtained from OriGene Technologies (TA50011) and the pAb anti-ubiquitin (U5379) was from Sigma–Aldrich. An anti-PITPNC1 pAb was obtained from Orbigen (PAB-02250) and the anti-ATRAP mAb (ab57555) was ...
Western blot
The western blot (sometimes called the protein immunoblot) is a widely used analytical technique used to detect specific proteins in a sample of tissue homogenate or extract. It uses gel electrophoresis to separate native proteins by 3-D structure or denatured proteins by the length of the polypeptide. The proteins are then transferred to a membrane (typically nitrocellulose or PVDF), where they are stained with antibodies specific to the target protein. The gel electrophoresis step is included in western blot analysis to resolve the issue of the cross-reactivity of antibodies.There are many reagent companies that specialize in providing antibodies (both monoclonal and polyclonal antibodies) against tens of thousands of different proteins. Commercial antibodies can be expensive, although the unbound antibody can be reused between experiments. This method is used in the fields of molecular biology, immunogenetics and other molecular biology disciplines. A number of search engines, such as CiteAb, Antibodypedia, and SeekProducts, are available that can help researchers find suitable antibodies for use in western blotting.Other related techniques include dot blot analysis, immunohistochemistry and immunocytochemistry where antibodies are used to detect proteins in tissues and cells by immunostaining, and enzyme-linked immunosorbent assay (ELISA).The method originated in the laboratory of Harry Towbin at the Friedrich Miescher Institute. The name western blot was given to the technique by W. Neal Burnette and is a play on the name Southern blot, a technique for DNA detection developed earlier by Edwin Southern. Detection of RNA is termed northern blot and was developed by George Stark at Stanford.