3D Structure - Canadian Bioinformatics Workshops
... Predicting Stability • Even if a protein expresses and remains soluble it may turn out to be quite unstable (easily proteolyzed) • Proteins that are rich in Proline (P), Glutamic acid (E), Serine (S) and Threonine (T) or which have regions that are rich in these amino acids (PEST sequences) tend to ...
... Predicting Stability • Even if a protein expresses and remains soluble it may turn out to be quite unstable (easily proteolyzed) • Proteins that are rich in Proline (P), Glutamic acid (E), Serine (S) and Threonine (T) or which have regions that are rich in these amino acids (PEST sequences) tend to ...
Seminal Proteins
... eminal fluid of mammals contains several barriers that prevent the entry of the exogenous DNA into the sperm cells [1]. These barriers are identified to explore their inhibitory roles through multiple mechanisms, such as DNA hydrolytic (DNase) activity [2], or DNA neutralization activity [3], or by ...
... eminal fluid of mammals contains several barriers that prevent the entry of the exogenous DNA into the sperm cells [1]. These barriers are identified to explore their inhibitory roles through multiple mechanisms, such as DNA hydrolytic (DNase) activity [2], or DNA neutralization activity [3], or by ...
Physical methods for structure, dynamics and
... methods has been recently published (see editorial overview and references therein [7]). Given that the alternative method for atomic resolution structure determination, NMR spectroscopy (Box 2), has a molecular size limitation and is slower than X-ray diffraction (Box 3), it is not surprising that ...
... methods has been recently published (see editorial overview and references therein [7]). Given that the alternative method for atomic resolution structure determination, NMR spectroscopy (Box 2), has a molecular size limitation and is slower than X-ray diffraction (Box 3), it is not surprising that ...
The genomes of four tapeworm species reveal adaptations to
... Information, section 9). Their main energy source, carbohydrates, can be catabolized by aerobic respiration or by two complementary anaerobic pathways; the lactate fermentation and malate dismutation pathways. The parasiticidal effects of mitochondrial fumarate reductase inhibitors have been demonst ...
... Information, section 9). Their main energy source, carbohydrates, can be catabolized by aerobic respiration or by two complementary anaerobic pathways; the lactate fermentation and malate dismutation pathways. The parasiticidal effects of mitochondrial fumarate reductase inhibitors have been demonst ...
Stanford Presentation, 10/23/2001
... • Due to technical issues such as computation time we are usually forced to accept a fixed backbone and only then put the side chains on it. • The quality of the side chain modeling is therefore heavily dependent on the position of the backbone. If the initial backbone conformation is wrong, the sid ...
... • Due to technical issues such as computation time we are usually forced to accept a fixed backbone and only then put the side chains on it. • The quality of the side chain modeling is therefore heavily dependent on the position of the backbone. If the initial backbone conformation is wrong, the sid ...
The RAGNYA fold: a novel fold with multiple topological variants
... (and the related EI barrel), b-grasp, S5-like fold, HhH (helix-hairpin-helix) and HTH (helix-turn-helix) [for further details see the SCOP database (1)]. These folds are not only found in proteins that passively interact with nucleic acids, but also form the catalytic domains of several key enzymes ...
... (and the related EI barrel), b-grasp, S5-like fold, HhH (helix-hairpin-helix) and HTH (helix-turn-helix) [for further details see the SCOP database (1)]. These folds are not only found in proteins that passively interact with nucleic acids, but also form the catalytic domains of several key enzymes ...
Friesland Foods Normal
... general be made up of two monomer binding sites and will have to be either palindromic or represent a direct repeat. Moreover, since the DNA is helical the actual monomer binding-site in general has to be shorter than 7 nucleotides and the two sites that make up the dimer binding-site have to be int ...
... general be made up of two monomer binding sites and will have to be either palindromic or represent a direct repeat. Moreover, since the DNA is helical the actual monomer binding-site in general has to be shorter than 7 nucleotides and the two sites that make up the dimer binding-site have to be int ...
Isolation of a New Member of the $100 Protein Family: Amino Acid
... Calpactins are members of a class of Ca2÷-binding proteins that interact with membrane lipids in vitro (10, 11, 1416, 48). Two related but distinct calpactins (I and II) are also substrates of the tyrosine-specific protein kinases (7, 16, 46) and bind to actin filaments (11, 16). Calpactin I is isol ...
... Calpactins are members of a class of Ca2÷-binding proteins that interact with membrane lipids in vitro (10, 11, 1416, 48). Two related but distinct calpactins (I and II) are also substrates of the tyrosine-specific protein kinases (7, 16, 46) and bind to actin filaments (11, 16). Calpactin I is isol ...
... which is indicative of metastases of prostate cancer. In accordance with another aspect of the present In such a diagnostic assay, a nucleic acid sequence in a invention, there is also provided nucleic acid probes comsample derived from a tissue other than the prostate is prising nucleic acid molecu ...
Dynamics of Protein Metabolism in the Ruminant
... Over heating also causes significant losses of lysine, cysine, and arginine. Among those AA, lysine is the most sensitive to heat damage and undergoes both destruction and ...
... Over heating also causes significant losses of lysine, cysine, and arginine. Among those AA, lysine is the most sensitive to heat damage and undergoes both destruction and ...
A Statistical Analysis of the Linear Interaction Energy Method
... – Computational cost generally scales linearly with number of structures (potential combinatorial explosion) – Can use either experimental information, or structures derived from computation ...
... – Computational cost generally scales linearly with number of structures (potential combinatorial explosion) – Can use either experimental information, or structures derived from computation ...
Systemic Organ Wasting Induced by Localized Expression of the
... in the upregulated muscle transcriptome of esgts>ykiact flies (p = 0.039; Figure 4A). In particular, Thor (human 4E-BP ortholog), a well-characterized target of Foxo, is significantly upregulated (Figure 4B). Consistent with the transcriptome analysis results, Akt phosphorylation is significantly re ...
... in the upregulated muscle transcriptome of esgts>ykiact flies (p = 0.039; Figure 4A). In particular, Thor (human 4E-BP ortholog), a well-characterized target of Foxo, is significantly upregulated (Figure 4B). Consistent with the transcriptome analysis results, Akt phosphorylation is significantly re ...
15.Flexible_Protein_Docking_Jonathan
... – Computational cost generally scales linearly with number of structures (potential combinatorial explosion) – Can use either experimental information, or structures derived from computation ...
... – Computational cost generally scales linearly with number of structures (potential combinatorial explosion) – Can use either experimental information, or structures derived from computation ...
Protein Solubility as Quality Index for Processed Soybean (PDF
... availability. Protein digestibility is a major index of protein quality because a certain amount of amino-acids may be present in a food and it may not necessarily be available to the organism for nourishment. This means proteins cannot be utilized unless they are digested [3]. The differences in pr ...
... availability. Protein digestibility is a major index of protein quality because a certain amount of amino-acids may be present in a food and it may not necessarily be available to the organism for nourishment. This means proteins cannot be utilized unless they are digested [3]. The differences in pr ...
Study of the arginine repressor in different organisms
... The arginine repressor (ArgR) regulates transcription of the arginine biosynthetic genes in bacteria. ArgR proteins play a multifunctional role in the bacterial cell. They inhibit biosynthetic promoters and are involved in activation of several catabolic pathways. The arginine repressor of Streptomy ...
... The arginine repressor (ArgR) regulates transcription of the arginine biosynthetic genes in bacteria. ArgR proteins play a multifunctional role in the bacterial cell. They inhibit biosynthetic promoters and are involved in activation of several catabolic pathways. The arginine repressor of Streptomy ...
the Acetyl-Coenzyme A
... A DNA fragment of Sa~~rh~lromj~ces cur-ei'isiaewith high homology to the acetyl-coenzyme A (acetyl-CoA) synthetase genes of Aspergillus nidulans and Neurospora crassa has been cloned, sequenced and mapped to chromosome I. It contains an open reading frame of 2139 nucleotides, encoding a predicted ge ...
... A DNA fragment of Sa~~rh~lromj~ces cur-ei'isiaewith high homology to the acetyl-coenzyme A (acetyl-CoA) synthetase genes of Aspergillus nidulans and Neurospora crassa has been cloned, sequenced and mapped to chromosome I. It contains an open reading frame of 2139 nucleotides, encoding a predicted ge ...
Guide to preparation of liquid biopsies for nucleic acid extraction
... The sample submission form should reflect the order of the samples in the plate (i.e. samples numbered from 1 to 12 in the sample submission form are in row 1 of the 96-well plate; samples numbered from 13 to 24 are in row 2, etc.). Seal the 96-well plate(s) with a proper seal for storage at tempera ...
... The sample submission form should reflect the order of the samples in the plate (i.e. samples numbered from 1 to 12 in the sample submission form are in row 1 of the 96-well plate; samples numbered from 13 to 24 are in row 2, etc.). Seal the 96-well plate(s) with a proper seal for storage at tempera ...
Protein-A Science-Based Approach By Dr. Joe Klemczewski
... The three-protein-meals-per-day advice of our celebrity physician might actually be meaningful. Research has concluded that multiple protein ingestions per day is better than one. Frequency might even affect the minimum and maximum thresholds for effectiveness. Dr. Jeremy Loenneke recently concluded ...
... The three-protein-meals-per-day advice of our celebrity physician might actually be meaningful. Research has concluded that multiple protein ingestions per day is better than one. Frequency might even affect the minimum and maximum thresholds for effectiveness. Dr. Jeremy Loenneke recently concluded ...
GRASP-DNA: A Web Application to Screen Prokaryotic Genomes for
... Abstract The ability to control multiple genes at the transcriptional level often relies on the existence of short stretches of well-defined DNA sequences, to which regulatory proteins and transcription factors bind. In this article we present a freely accessible webbased application (GRASP-DNA), th ...
... Abstract The ability to control multiple genes at the transcriptional level often relies on the existence of short stretches of well-defined DNA sequences, to which regulatory proteins and transcription factors bind. In this article we present a freely accessible webbased application (GRASP-DNA), th ...
a Disulfide Bridge DataBase for the predictive analysis of cysteine
... identify cysteine residues which are involved or not in a disulfide bond from the amino acid sequence that surrounds the cysteine. The goal of this database is to serve as a reference for the evaluation of disulfide bridge prediction softwares and will help us develop our own prediction software. ...
... identify cysteine residues which are involved or not in a disulfide bond from the amino acid sequence that surrounds the cysteine. The goal of this database is to serve as a reference for the evaluation of disulfide bridge prediction softwares and will help us develop our own prediction software. ...
Cell and Molecular Biology
... isn’t fully exposed until the nascent polypeptide is about 50 amino acids long. •SRP-ribosome attaches to SRP receptor and then docks on a protein translocator. •SRP and receptor dissociate. •Translation and translocation proceed in unison - co-translational transport. •The energy for transport is p ...
... isn’t fully exposed until the nascent polypeptide is about 50 amino acids long. •SRP-ribosome attaches to SRP receptor and then docks on a protein translocator. •SRP and receptor dissociate. •Translation and translocation proceed in unison - co-translational transport. •The energy for transport is p ...
The Invention of Proteomic Code and mRNA
... amino acids into proteins. Various combinations of bases along one of the grooves in the double helix could form distinctively shaped cavities into which the side chains of amino acids might fit. Each cavity would attract a specific amino acid; when all the amino acids were lined up in the correct o ...
... amino acids into proteins. Various combinations of bases along one of the grooves in the double helix could form distinctively shaped cavities into which the side chains of amino acids might fit. Each cavity would attract a specific amino acid; when all the amino acids were lined up in the correct o ...
Predicting Secondary Structures of Proteins
... substances are present, and then releases it, the protein immediately folds back to the same 3-D structure it had before. This folding process takes less than a second. Therefore, it seems that all the information necessary for the protein to achieve its “native structure” is contained in its amino ...
... substances are present, and then releases it, the protein immediately folds back to the same 3-D structure it had before. This folding process takes less than a second. Therefore, it seems that all the information necessary for the protein to achieve its “native structure” is contained in its amino ...
Optimization of the heterologous expression of folate metabolic Plasmodium falciparum
... comparison to oGTPCHI using the different expression conditions. This is because codon-harmonization involves substituting codons to replicate the codon frequency preference of the target gene in P. falciparum, as such the translation machinery matches that of Plasmodium (Angov et al. 2008). Further ...
... comparison to oGTPCHI using the different expression conditions. This is because codon-harmonization involves substituting codons to replicate the codon frequency preference of the target gene in P. falciparum, as such the translation machinery matches that of Plasmodium (Angov et al. 2008). Further ...
Differential Regulation of a-Lactalbumin and
... gland on various days of pregnancy and lactation. Chart 8 pups during lactation; casein messenger levels are dimin shows total protein synthesized as a function of the pg of ished (Chart 9A). When a-lactalbumin mRNA activity was measured at RNA added to the translation system. It is apparent from th ...
... gland on various days of pregnancy and lactation. Chart 8 pups during lactation; casein messenger levels are dimin shows total protein synthesized as a function of the pg of ished (Chart 9A). When a-lactalbumin mRNA activity was measured at RNA added to the translation system. It is apparent from th ...
Gene expression
Gene expression is the process by which information from a gene is used in the synthesis of a functional gene product. These products are often proteins, but in non-protein coding genes such as transfer RNA (tRNA) or small nuclear RNA (snRNA) genes, the product is a functional RNA.The process of gene expression is used by all known life - eukaryotes (including multicellular organisms), prokaryotes (bacteria and archaea), and utilized by viruses - to generate the macromolecular machinery for life.Several steps in the gene expression process may be modulated, including the transcription, RNA splicing, translation, and post-translational modification of a protein. Gene regulation gives the cell control over structure and function, and is the basis for cellular differentiation, morphogenesis and the versatility and adaptability of any organism. Gene regulation may also serve as a substrate for evolutionary change, since control of the timing, location, and amount of gene expression can have a profound effect on the functions (actions) of the gene in a cell or in a multicellular organism.In genetics, gene expression is the most fundamental level at which the genotype gives rise to the phenotype, i.e. observable trait. The genetic code stored in DNA is ""interpreted"" by gene expression, and the properties of the expression give rise to the organism's phenotype. Such phenotypes are often expressed by the synthesis of proteins that control the organism's shape, or that act as enzymes catalysing specific metabolic pathways characterising the organism.