Biochimica et Biophysica Acta
... Key words: Cell envelope protein; Bacterial antigen; Amino acid composition: Fish disease," (Aeromonas salmonicida) ...
... Key words: Cell envelope protein; Bacterial antigen; Amino acid composition: Fish disease," (Aeromonas salmonicida) ...
New roles for structure in biology and drug discovery
... Target selection involves database interrogation, sequence comparison and fold recognition, to aid selection of the best candidate proteins given a particular set of requirements (for example, disease associated genes, or those that are common to most organisms)12. Solved structures must be placed i ...
... Target selection involves database interrogation, sequence comparison and fold recognition, to aid selection of the best candidate proteins given a particular set of requirements (for example, disease associated genes, or those that are common to most organisms)12. Solved structures must be placed i ...
Project descriptions
... 3) Integrating bioinformatics tools and databases for assessing the functional significance of SNPs Much effort in current human genomics, epidemiology, and pharmarcogenomics is focused on the identification of genetic variations that are responsible for common and complex human diseases. Specifical ...
... 3) Integrating bioinformatics tools and databases for assessing the functional significance of SNPs Much effort in current human genomics, epidemiology, and pharmarcogenomics is focused on the identification of genetic variations that are responsible for common and complex human diseases. Specifical ...
Document
... protein. ExoU is a recently described lipase that disrupts membrane function in mammalian cells. ExoY is an adenylate cyclase that elevates intracellular cyclic AMP (cAMP) to supraphysiological levels, which indirectly disrupts the actin cytoskeleton. ETA is the most potent protein toxin that P. aer ...
... protein. ExoU is a recently described lipase that disrupts membrane function in mammalian cells. ExoY is an adenylate cyclase that elevates intracellular cyclic AMP (cAMP) to supraphysiological levels, which indirectly disrupts the actin cytoskeleton. ETA is the most potent protein toxin that P. aer ...
Using titration curves to determine pKa values
... solution. Biological amphoteric molecules such as proteins contain both acidic and basic functional groups. Amino acids which make up proteins may be positive, negative, neutral or polar in nature, and together give a protein its overall charge. At a pH below their pI, proteins carry a net positive ...
... solution. Biological amphoteric molecules such as proteins contain both acidic and basic functional groups. Amino acids which make up proteins may be positive, negative, neutral or polar in nature, and together give a protein its overall charge. At a pH below their pI, proteins carry a net positive ...
RNA
... Tertiary structure: the overall shape of a single protein molecule; most commonly the formation of a hydrophobic core, but also through salt bridges, hydrogen bonds, disulfide bonds. The tertiary structure is ...
... Tertiary structure: the overall shape of a single protein molecule; most commonly the formation of a hydrophobic core, but also through salt bridges, hydrogen bonds, disulfide bonds. The tertiary structure is ...
Name:______________________________
... Since both of these structures exist as a single unique conformation, they both have an entropy, S=0 (W=1). Therefore the entropy change is zero. B4. (8 pts) The handout contains a chime image of a portion of a β-sheet from lysozyme (oxygen is colored red, nitrogen pale blue, carbon grey. Note that ...
... Since both of these structures exist as a single unique conformation, they both have an entropy, S=0 (W=1). Therefore the entropy change is zero. B4. (8 pts) The handout contains a chime image of a portion of a β-sheet from lysozyme (oxygen is colored red, nitrogen pale blue, carbon grey. Note that ...
Presentation (PowerPoint File) - IPAM
... No function is known, but some appear to be membrane bound No structure is known: always insoluble when expressed Goal: use functional linkages to predict a complex between a PE and a PPE protein: express complex, and determine its structure Research of Shuishu Wang and Michael Strong ...
... No function is known, but some appear to be membrane bound No structure is known: always insoluble when expressed Goal: use functional linkages to predict a complex between a PE and a PPE protein: express complex, and determine its structure Research of Shuishu Wang and Michael Strong ...
Evolutionary rate at the protein domain level is
... In previous studies attempting to link function with evolutionary rate the evolutionary rate was measured for the entire protein. But individual domains within a protein, which have different functions and participate in separate reactions, evolve at distinctly different rates. For example, 80s1 is ...
... In previous studies attempting to link function with evolutionary rate the evolutionary rate was measured for the entire protein. But individual domains within a protein, which have different functions and participate in separate reactions, evolve at distinctly different rates. For example, 80s1 is ...
Recognition of an Essential Adenine at a Protein
... stabilization of protein-nucleic acid complexes is not well established.1 Stacking interactions between proteins and nucleic acid helices are uncommon because the nucleic acid bases are already involved in this interaction in the helix.2 However, bases in single-stranded regions of nucleic acids are ...
... stabilization of protein-nucleic acid complexes is not well established.1 Stacking interactions between proteins and nucleic acid helices are uncommon because the nucleic acid bases are already involved in this interaction in the helix.2 However, bases in single-stranded regions of nucleic acids are ...
Flow Cytometry Protein A and Protein G Antibody Binding Beads
... Prepare a separate sample of Protein A or Protein G Antibody Binding Beads for each fluorochrome-labeled antibody as follows: 1. Place one drop (~50µL, ~100,000 beads) of Antibody Binding Beads into a test tube. Add the fluorochrome-conjugated antibody that is being used for cell labeling. You may ...
... Prepare a separate sample of Protein A or Protein G Antibody Binding Beads for each fluorochrome-labeled antibody as follows: 1. Place one drop (~50µL, ~100,000 beads) of Antibody Binding Beads into a test tube. Add the fluorochrome-conjugated antibody that is being used for cell labeling. You may ...
Bending membranes
... It is widely assumed that peripheral membrane proteins induce intracellular membrane curvature by the asymmetric insertion of a protein segment into the lipid bilayer, or by imposing shape by adhesion of a curved protein domain to the membrane surface. Two papers now provide convincing evidence chal ...
... It is widely assumed that peripheral membrane proteins induce intracellular membrane curvature by the asymmetric insertion of a protein segment into the lipid bilayer, or by imposing shape by adhesion of a curved protein domain to the membrane surface. Two papers now provide convincing evidence chal ...
Macromolecule worksheet answer Key
... called a macromolecule. If the small organic units are identical or form patterns they are called monomers and the large organic molecule they form is called a polymer. When monomers are joined together the reaction is called dehydration synthesis or condensation as water is produced when the monome ...
... called a macromolecule. If the small organic units are identical or form patterns they are called monomers and the large organic molecule they form is called a polymer. When monomers are joined together the reaction is called dehydration synthesis or condensation as water is produced when the monome ...
Uncoupling proteins - Widener University
... hormone that links obesity to diabetes. It was originally named for its resistance to insulin. Resistin serum levels were increased in obesity and resistin gene expression was induced during adipocyte differentiation (Fig. 1). ...
... hormone that links obesity to diabetes. It was originally named for its resistance to insulin. Resistin serum levels were increased in obesity and resistin gene expression was induced during adipocyte differentiation (Fig. 1). ...
Statistical Analysis Using Scaffold - Proteome Software
... different experiments and different search engines • Allows sharing of raw data and search results • Accepted as a suitable statistical method to validate ...
... different experiments and different search engines • Allows sharing of raw data and search results • Accepted as a suitable statistical method to validate ...
Anne Ye - A Critical Review of Computational Protein Design Strategies: Progress, Limitations, and Improvements
... educated guesses about which residues will be tolerated at certain positions in the protein, allowing some reduction in the sequence search space. Related to this, early success in de novo design was achieved using hydrophobic patterning, which is based on the premise that strategic arrangement of p ...
... educated guesses about which residues will be tolerated at certain positions in the protein, allowing some reduction in the sequence search space. Related to this, early success in de novo design was achieved using hydrophobic patterning, which is based on the premise that strategic arrangement of p ...
CHAPTER 2 OBJECTIVE EXERCISE
... contain the atoms carbon (and are small compounds that do not hydrogen); contain the atoms C and H; Examples include oxygen, carbon dioxide (CO2) are small molecules (monomers or water, salts, acids & bases. See table building blocks) are covalently bonded 2.6, page 62. together to form large polyme ...
... contain the atoms carbon (and are small compounds that do not hydrogen); contain the atoms C and H; Examples include oxygen, carbon dioxide (CO2) are small molecules (monomers or water, salts, acids & bases. See table building blocks) are covalently bonded 2.6, page 62. together to form large polyme ...
Maintaining the Canonical Amino Acid Alphabet
... Natural evolution has selected a set of 20 canonical genetically encoded amino acids to build a plethora of proteins that provide the biochemical foundations for life. To participate in protein synthesis amino acids require attachment to transfer RNA molecules (tRNAs). This reaction is accomplished ...
... Natural evolution has selected a set of 20 canonical genetically encoded amino acids to build a plethora of proteins that provide the biochemical foundations for life. To participate in protein synthesis amino acids require attachment to transfer RNA molecules (tRNAs). This reaction is accomplished ...
Exploring a Protein Structure in the RCSB PDB: T
... Review the Molecule of the Month feature on T-cell Receptors (TCR) for background information (http://pdb101.rcsb.org/motm/63). Discuss main ideas of this feature with the students. Note that there are a few PDB entries listed throughout the feature. For example, PDB entry 1tcr, in the “Antibody Arm ...
... Review the Molecule of the Month feature on T-cell Receptors (TCR) for background information (http://pdb101.rcsb.org/motm/63). Discuss main ideas of this feature with the students. Note that there are a few PDB entries listed throughout the feature. For example, PDB entry 1tcr, in the “Antibody Arm ...
"non-natural" amino acids - RIKEN Systems and Structural Biology
... blocks called amino acids. It is known that there exist hundreds of amino acids in nature, however, only 20 of them serve as the protein constituents. Expanding repertoire of amino acids beyond the standard 20 could impart novel biological functions not found in nature, and the use of non-natural am ...
... blocks called amino acids. It is known that there exist hundreds of amino acids in nature, however, only 20 of them serve as the protein constituents. Expanding repertoire of amino acids beyond the standard 20 could impart novel biological functions not found in nature, and the use of non-natural am ...
REVIEWS How membrane proteins travel across the mitochondrial
... complex? Is the transfer of the precursor between the different Tim proteins mediated by conformational changes of those proteins? The import pathway could be even simpler than shown in Fig. 3. It is possible that the small Tim proteins are not essential for the imported substrates to reach the inne ...
... complex? Is the transfer of the precursor between the different Tim proteins mediated by conformational changes of those proteins? The import pathway could be even simpler than shown in Fig. 3. It is possible that the small Tim proteins are not essential for the imported substrates to reach the inne ...
Lecture 13 - 14 Conformation of proteins Conformation of a protein
... and cannot be affected by solvent, pH, temperature and salts whereas the above conditions. The disulfide bond can be split and reformed by oxidation/reduction respectively ...
... and cannot be affected by solvent, pH, temperature and salts whereas the above conditions. The disulfide bond can be split and reformed by oxidation/reduction respectively ...
Cellular Localization Data - SGD-Wiki
... Hidden Markov models (HMM) have been successfully applied to the tasks of transmembrane protein topology prediction and signal peptide prediction. Philius, is inspired by a previously published HMM, Ph ...
... Hidden Markov models (HMM) have been successfully applied to the tasks of transmembrane protein topology prediction and signal peptide prediction. Philius, is inspired by a previously published HMM, Ph ...
Publications_files/Stotland et al 2012
... FACS-sorted, clonally selected on the basis of high mCherry expression, and probed with anti-CSN1 antibody to confirm the expression of SBP-CSN1 (Fig .1B–D). As a control, we utilized a similar construct where CSN1 was substituted with Citrine, a modified yellow fluorescent protein chosen to exclude ...
... FACS-sorted, clonally selected on the basis of high mCherry expression, and probed with anti-CSN1 antibody to confirm the expression of SBP-CSN1 (Fig .1B–D). As a control, we utilized a similar construct where CSN1 was substituted with Citrine, a modified yellow fluorescent protein chosen to exclude ...
Lattice model of protein folding
... you will see that this is a reasonable value to use. In any event, different values of ∆ would only shift the temperatures at which various features are observed, not the qualitative behavior.4 Figure 2 shows a denaturation curve for our tetramer. The sigmoidal shape of this curve is fairly typical ...
... you will see that this is a reasonable value to use. In any event, different values of ∆ would only shift the temperatures at which various features are observed, not the qualitative behavior.4 Figure 2 shows a denaturation curve for our tetramer. The sigmoidal shape of this curve is fairly typical ...
Protein–protein interaction
Protein–protein interactions (PPIs) refer to physical contacts established between two or more proteins as a result of biochemical events and/or electrostatic forces.In fact, proteins are vital macromolecules, at both cellular and systemic levels, but they rarely act alone. Diverse essential molecular processes within a cell are carried out by molecular machines that are built from a large number of protein components organized by their PPIs. Indeed, these interactions are at the core of the entire interactomics system of any living cell and so, unsurprisingly, aberrant PPIs are on the basis of multiple diseases, such as Creutzfeld-Jacob, Alzheimer's disease, and cancer.PPIs have been studied from different perspectives: biochemistry, quantum chemistry, molecular dynamics, signal transduction, among others. All this information enables the creation of large protein interaction networks – similar to metabolic or genetic/epigenetic networks – that empower the current knowledge on biochemical cascades and disease pathogenesis, as well as provide putative new therapeutic targets.