Fibrous proteins
... the walls of large arteries, and elastic ligaments. They can be stretched to several times their normal length, but recoil to their original shape when the stretching force is relaxed. ...
... the walls of large arteries, and elastic ligaments. They can be stretched to several times their normal length, but recoil to their original shape when the stretching force is relaxed. ...
Amino acid residues that determine functional specificity of NADP
... Apart from 344Lys, 345Tyr, and 351Val, several other amino acids contact cofactor in most considered structures: substrate-specific residues 103Leu, 105Thr, 337Ala, and 341Thr contact the nicotinamide nucleotide and thus spatially lie between the cofactor-binding and the substratebinding pockets. The ...
... Apart from 344Lys, 345Tyr, and 351Val, several other amino acids contact cofactor in most considered structures: substrate-specific residues 103Leu, 105Thr, 337Ala, and 341Thr contact the nicotinamide nucleotide and thus spatially lie between the cofactor-binding and the substratebinding pockets. The ...
Dietary Guidelines should reflect new understandings about adult
... establishes health benefits and provides molecular evidence of numerous metabolic outcomes associated with protein intake or amino acid metabolism that are not reflected in the traditional measure of nitrogen balance. These outcomes include cell signaling via leucine [7,8], satiety [9,10], thermogen ...
... establishes health benefits and provides molecular evidence of numerous metabolic outcomes associated with protein intake or amino acid metabolism that are not reflected in the traditional measure of nitrogen balance. These outcomes include cell signaling via leucine [7,8], satiety [9,10], thermogen ...
The nucleotide sequence and derived amino acid
... the sequences of all of these CA isozymes are compared, about 30~ of the residues were found to be identical. Despite this relatively high degree of evolutionary homology, however, the often disparate physicochemical and kinetic properties, and considerable variation in tissue distribution of the CA ...
... the sequences of all of these CA isozymes are compared, about 30~ of the residues were found to be identical. Despite this relatively high degree of evolutionary homology, however, the often disparate physicochemical and kinetic properties, and considerable variation in tissue distribution of the CA ...
Investigation of the interactions between MreB, the
... allosteric communication, also differs from GroEL. Furthermore, TRiC is larger than GroEL with a broader opening of the chaperonin chamber. (5) Despite these differences, TRiC and GroEL are in many ways similar. As mentioned in the introduction to this report, studies on actin by Villebeck et al. (5 ...
... allosteric communication, also differs from GroEL. Furthermore, TRiC is larger than GroEL with a broader opening of the chaperonin chamber. (5) Despite these differences, TRiC and GroEL are in many ways similar. As mentioned in the introduction to this report, studies on actin by Villebeck et al. (5 ...
Functional analysis of hyperthermophilic endocellulase from
... and c = 138 Å, and β = 109 Å. We identified three molecules of EGPhN5C5 in the crystallographic asymmetric unit. The rmsd (root mean square deviation) of the Cα atom was less than 0.5 Å among the three molecules (hereafter referred as MolA, MolB and MolC respectively), suggesting that they were alm ...
... and c = 138 Å, and β = 109 Å. We identified three molecules of EGPhN5C5 in the crystallographic asymmetric unit. The rmsd (root mean square deviation) of the Cα atom was less than 0.5 Å among the three molecules (hereafter referred as MolA, MolB and MolC respectively), suggesting that they were alm ...
PLoS Pathogens
... experimentally confirmed T3SEs were collected from the 23 species having at least one characterized T3SE (Table S1). Using a combination of BLASTP, TBLASTX, and pair-wise BLAST (BL2SEQ), we identified two common and interrelated features among T3SEs from all species. First, the N or C terminus of many ...
... experimentally confirmed T3SEs were collected from the 23 species having at least one characterized T3SE (Table S1). Using a combination of BLASTP, TBLASTX, and pair-wise BLAST (BL2SEQ), we identified two common and interrelated features among T3SEs from all species. First, the N or C terminus of many ...
Annex 1
... 1. For the purposes of this standard the following definitions shall be applicable: (i) the expression "sequence listing" means a part of the description of the application as filed or a document filed subsequently to the application, which gives a detailed disclosure of the nucleotide and/or amino ...
... 1. For the purposes of this standard the following definitions shall be applicable: (i) the expression "sequence listing" means a part of the description of the application as filed or a document filed subsequently to the application, which gives a detailed disclosure of the nucleotide and/or amino ...
pGADT7 AD Vector Information
... Note: The vector sequence was compiled from information in the sequence databases, published literature, and other sources, together with partial sequences obtained by Clontech.This vector has not been completely sequenced. Notice to Purchaser Clontech products are to be used for research purposes o ...
... Note: The vector sequence was compiled from information in the sequence databases, published literature, and other sources, together with partial sequences obtained by Clontech.This vector has not been completely sequenced. Notice to Purchaser Clontech products are to be used for research purposes o ...
Analysis of protein carbonylation
... carbonyl group, derivatization should be performed at the earliest possible stage of sample preparation, ...
... carbonyl group, derivatization should be performed at the earliest possible stage of sample preparation, ...
Repositório da Universidade de Lisboa
... diversity in Eukaryotes and to make these results available to community. To this end, machine learning and sequence manipulation techniques were used, leading to the identification of more than five thousand sequences in 182 species. The identified sequences are available on the TrafficDB website ( ...
... diversity in Eukaryotes and to make these results available to community. To this end, machine learning and sequence manipulation techniques were used, leading to the identification of more than five thousand sequences in 182 species. The identified sequences are available on the TrafficDB website ( ...
Predicting RNA Secondary Structures
... It is possible to predict the secondary structure of an RNA sequence The accuracy is ~70% Predictions are easier and more accurate on small molecules (fewer than 500 nucleotides) ...
... It is possible to predict the secondary structure of an RNA sequence The accuracy is ~70% Predictions are easier and more accurate on small molecules (fewer than 500 nucleotides) ...
Why to develop a model by using NTCC calculus?
... The description of biological systems using concurrent constraint processes involves a series of features that can be beneficial to the interests of biology. These features are based on the ability to represent: (1) The evolution of systems over time (discrete or continuous) (2) Partial or incomplet ...
... The description of biological systems using concurrent constraint processes involves a series of features that can be beneficial to the interests of biology. These features are based on the ability to represent: (1) The evolution of systems over time (discrete or continuous) (2) Partial or incomplet ...
北京聚合美生物科技有限公司 Mei5 Biotechnology, Co., Ltd M5 GFP
... Store at -20°C. Stable for one year from the date of shipment. 【BACKGROUND】 The green fluorescent protein (GFP) was originally identified as a protein involved in the bioluminescence of the jellyfish Aequorea victoria. GFP cDNA produces a fluorescent product when expressed in prokaryotic cells, with ...
... Store at -20°C. Stable for one year from the date of shipment. 【BACKGROUND】 The green fluorescent protein (GFP) was originally identified as a protein involved in the bioluminescence of the jellyfish Aequorea victoria. GFP cDNA produces a fluorescent product when expressed in prokaryotic cells, with ...
Protein Detection Methods in Proteomics Research
... With the second variant a considerable increase in sensitivity is obtained. 2-D patterns resulting from down to 1 lg total protein load can be visualized. Because all available cysteine residues are labeled, many multiply labeled proteins exist. The resulting spot patterns are different from those ac ...
... With the second variant a considerable increase in sensitivity is obtained. 2-D patterns resulting from down to 1 lg total protein load can be visualized. Because all available cysteine residues are labeled, many multiply labeled proteins exist. The resulting spot patterns are different from those ac ...
From Sequence to Structure
... and to accept hydrogen bonds simultaneously. Cysteine, like histidine, is commonly found in enzyme active sites, because the thiolate anion is the most powerful nucleophile available from the naturally occurring amino acids. Amphipathic residues have both polar and nonpolar character, making them id ...
... and to accept hydrogen bonds simultaneously. Cysteine, like histidine, is commonly found in enzyme active sites, because the thiolate anion is the most powerful nucleophile available from the naturally occurring amino acids. Amphipathic residues have both polar and nonpolar character, making them id ...
Unveiling the Transcriptome using High
... • Ab initio discovery by alignment to reference genome – QPalma (Bona et al. 2008) • supervised splice site prediction and gapped alignment algorithm for aligning spliced reads – TopHat (Trapnell et al. 2009) • detect potential junctions based on structural features of introns, e.g. GT – AG dinucleo ...
... • Ab initio discovery by alignment to reference genome – QPalma (Bona et al. 2008) • supervised splice site prediction and gapped alignment algorithm for aligning spliced reads – TopHat (Trapnell et al. 2009) • detect potential junctions based on structural features of introns, e.g. GT – AG dinucleo ...
Adv. Protein Chem. Struct. Biol.
... conformation. This was proposed even before the determination of the first protein three-dimensional (3D) structure (myoglobin; Kendrew et al., 1958). One year later, Linderstrom-Lang and Schellmann (1959) proposed a breath-like continuous movement of the protein structures, an idea which was experi ...
... conformation. This was proposed even before the determination of the first protein three-dimensional (3D) structure (myoglobin; Kendrew et al., 1958). One year later, Linderstrom-Lang and Schellmann (1959) proposed a breath-like continuous movement of the protein structures, an idea which was experi ...
What is Yin Yang site?
... – Direct competition at a single site – Competition via steric hindrance by reciprocal modification at proximal sites – Affecting the enzymatic efficiency of each other ...
... – Direct competition at a single site – Competition via steric hindrance by reciprocal modification at proximal sites – Affecting the enzymatic efficiency of each other ...
A New Subfamily of Major Intrinsic Proteins in
... described plant MIP genes belonging to the PIP, TIP, and NIP subfamilies (U. Johanson at the MIP 2000 meeting in Göteborg, Sweden, unpublished data). Phylogenetic comparison with Arabidopsis representatives for these three MIP subfamilies shows that the new proteins form a distinct and new subfamil ...
... described plant MIP genes belonging to the PIP, TIP, and NIP subfamilies (U. Johanson at the MIP 2000 meeting in Göteborg, Sweden, unpublished data). Phylogenetic comparison with Arabidopsis representatives for these three MIP subfamilies shows that the new proteins form a distinct and new subfamil ...
Determination and Quantification of Molecular Interactions in Protein
... determination of solutions is that the samples must be dissolved. Possible consequences could be that interactions between the sample and dissolving agent change the protein conformation. This work focuses on determination methods of molecular interactions that are already widely used in connection ...
... determination of solutions is that the samples must be dissolved. Possible consequences could be that interactions between the sample and dissolving agent change the protein conformation. This work focuses on determination methods of molecular interactions that are already widely used in connection ...
Electrophoresis Chapter 10 +
... • High voltage (>2500V) leads to generation of heat, cooling is needed. • Micro-heterogeneities in the sample can be analyzed. ...
... • High voltage (>2500V) leads to generation of heat, cooling is needed. • Micro-heterogeneities in the sample can be analyzed. ...
Homology modeling
Homology modeling, also known as comparative modeling of protein, refers to constructing an atomic-resolution model of the ""target"" protein from its amino acid sequence and an experimental three-dimensional structure of a related homologous protein (the ""template""). Homology modeling relies on the identification of one or more known protein structures likely to resemble the structure of the query sequence, and on the production of an alignment that maps residues in the query sequence to residues in the template sequence. It has been shown that protein structures are more conserved than protein sequences amongst homologues, but sequences falling below a 20% sequence identity can have very different structure.Evolutionarily related proteins have similar sequences and naturally occurring homologous proteins have similar protein structure.It has been shown that three-dimensional protein structure is evolutionarily more conserved than would be expected on the basis of sequence conservation alone.The sequence alignment and template structure are then used to produce a structural model of the target. Because protein structures are more conserved than DNA sequences, detectable levels of sequence similarity usually imply significant structural similarity.The quality of the homology model is dependent on the quality of the sequence alignment and template structure. The approach can be complicated by the presence of alignment gaps (commonly called indels) that indicate a structural region present in the target but not in the template, and by structure gaps in the template that arise from poor resolution in the experimental procedure (usually X-ray crystallography) used to solve the structure. Model quality declines with decreasing sequence identity; a typical model has ~1–2 Å root mean square deviation between the matched Cα atoms at 70% sequence identity but only 2–4 Å agreement at 25% sequence identity. However, the errors are significantly higher in the loop regions, where the amino acid sequences of the target and template proteins may be completely different.Regions of the model that were constructed without a template, usually by loop modeling, are generally much less accurate than the rest of the model. Errors in side chain packing and position also increase with decreasing identity, and variations in these packing configurations have been suggested as a major reason for poor model quality at low identity. Taken together, these various atomic-position errors are significant and impede the use of homology models for purposes that require atomic-resolution data, such as drug design and protein–protein interaction predictions; even the quaternary structure of a protein may be difficult to predict from homology models of its subunit(s). Nevertheless, homology models can be useful in reaching qualitative conclusions about the biochemistry of the query sequence, especially in formulating hypotheses about why certain residues are conserved, which may in turn lead to experiments to test those hypotheses. For example, the spatial arrangement of conserved residues may suggest whether a particular residue is conserved to stabilize the folding, to participate in binding some small molecule, or to foster association with another protein or nucleic acid. Homology modeling can produce high-quality structural models when the target and template are closely related, which has inspired the formation of a structural genomics consortium dedicated to the production of representative experimental structures for all classes of protein folds. The chief inaccuracies in homology modeling, which worsen with lower sequence identity, derive from errors in the initial sequence alignment and from improper template selection. Like other methods of structure prediction, current practice in homology modeling is assessed in a biennial large-scale experiment known as the Critical Assessment of Techniques for Protein Structure Prediction, or CASP.