Isofocusing Chromatography
... the chromatofocusing medium is equilibrated with start buffer at high PH. •An elution buffer in the column begins to titrate the amines on the medium and the proteins. •After pre-gradient volume of elution buffer has passed, sample is applied to the column. •Proteins in the sample that are at PH abo ...
... the chromatofocusing medium is equilibrated with start buffer at high PH. •An elution buffer in the column begins to titrate the amines on the medium and the proteins. •After pre-gradient volume of elution buffer has passed, sample is applied to the column. •Proteins in the sample that are at PH abo ...
BIOLOGICAL MACROMOLECULES
... structure and function of proteins, nucleic acids, and their complexes. The topics addressed are a selection of modern biophysical methods applied to current questions in macromolecular biochemistry. In particular, the interplay of structure and function of biological macromolecules will be highligh ...
... structure and function of proteins, nucleic acids, and their complexes. The topics addressed are a selection of modern biophysical methods applied to current questions in macromolecular biochemistry. In particular, the interplay of structure and function of biological macromolecules will be highligh ...
information. - Magellan BioScience
... biotinyl-, 7-methoxycoumarin-4-acetyl-, dansyl-, and phenylacetyl- groups. There are peptides that are sequence-scans of proteins, i.e. overlapping peptides by 5 amino acids, for example, along the whole sequence of a protein. The collective sequence of the peptides is a valuable source of many stru ...
... biotinyl-, 7-methoxycoumarin-4-acetyl-, dansyl-, and phenylacetyl- groups. There are peptides that are sequence-scans of proteins, i.e. overlapping peptides by 5 amino acids, for example, along the whole sequence of a protein. The collective sequence of the peptides is a valuable source of many stru ...
Flow of genetic information DNA --> RNA -
... Unfinished HTG sequences containing contigs greater than 2 kb are assigned an accession number and deposited in the HTG division. A typical HTG record might consist of all the first pass sequence data generated from a single cosmid, BAC, YAC, or P1 clone which together comprise more than 2 kb and co ...
... Unfinished HTG sequences containing contigs greater than 2 kb are assigned an accession number and deposited in the HTG division. A typical HTG record might consist of all the first pass sequence data generated from a single cosmid, BAC, YAC, or P1 clone which together comprise more than 2 kb and co ...
A gene tree may differ from a species tree
... • They observed the number of amino acid differences between human globins – β and δ (~ 6 differences), β and γ (~ 36 differences), α and β (~ 78 differences), and α and γ (~ 83 differences). • They could also compare human to gorilla (both β and α globins), observing either 2 or 1 differences respe ...
... • They observed the number of amino acid differences between human globins – β and δ (~ 6 differences), β and γ (~ 36 differences), α and β (~ 78 differences), and α and γ (~ 83 differences). • They could also compare human to gorilla (both β and α globins), observing either 2 or 1 differences respe ...
Proceeding - ETH Zürich
... excluded from contact with the surface of the proteins. The degree of preferential hydration was shown to be dependent on sugar concentration, and that physico-chemical properties such as partial specific volume of the proteins, structure, stability, and protein-protein interaction are altered in th ...
... excluded from contact with the surface of the proteins. The degree of preferential hydration was shown to be dependent on sugar concentration, and that physico-chemical properties such as partial specific volume of the proteins, structure, stability, and protein-protein interaction are altered in th ...
Custom Protein Order Information
... Please fill in the following information in detail and send the complete form to orders@elabscience.com. Our technical staff will make professional assessment according to the information you provide and send the assessment result to your mailbox at the first time. Thanks for your trust and support ...
... Please fill in the following information in detail and send the complete form to orders@elabscience.com. Our technical staff will make professional assessment according to the information you provide and send the assessment result to your mailbox at the first time. Thanks for your trust and support ...
Protein Concentration
... Pace, Vajdos, Lee, Grimsley and Gray, Protein Science, 4: 2411-2423, 1995 These extinction coefficients represent average values from a collection of folded proteins. The extinction coefficients for amino acid chromophores are sensitive to their environment, though the variation is relatively small ...
... Pace, Vajdos, Lee, Grimsley and Gray, Protein Science, 4: 2411-2423, 1995 These extinction coefficients represent average values from a collection of folded proteins. The extinction coefficients for amino acid chromophores are sensitive to their environment, though the variation is relatively small ...
Database Searching
... score has drops more than X below the maximum score yet attained. • Extension step typically accounts for > 90% of execution time. ...
... score has drops more than X below the maximum score yet attained. • Extension step typically accounts for > 90% of execution time. ...
Holliday Poster - The HeliX group
... The pivotal role of the tumour suppressor protein p53 in cancer is well documented with over 50% of all cancers having associated with them, mutations in p531,2. Previous work has identified the p53 consensus sequence, which defines the DNA sequence elements with which p53 ...
... The pivotal role of the tumour suppressor protein p53 in cancer is well documented with over 50% of all cancers having associated with them, mutations in p531,2. Previous work has identified the p53 consensus sequence, which defines the DNA sequence elements with which p53 ...
Proteins containing unusual amino acid sequences
... study, they were looked at for statistically nonrandom elements, and for evidence of repeating units. Thus Brenner [l] used an analysis of dipeptide frequencies, at a time when only about 60% of these 400 possible sequences had been recognized in natural proteins, as a way of deciding if some hypoth ...
... study, they were looked at for statistically nonrandom elements, and for evidence of repeating units. Thus Brenner [l] used an analysis of dipeptide frequencies, at a time when only about 60% of these 400 possible sequences had been recognized in natural proteins, as a way of deciding if some hypoth ...
Algorithmic Bioinformatics
... bioinformatics. It will cover: sequences (DNA and amino acid sequences). structure (structure comparison and alignment) ...
... bioinformatics. It will cover: sequences (DNA and amino acid sequences). structure (structure comparison and alignment) ...
Usha`s project - The University of Texas at Dallas
... By comparing 3D structures of proteins with computational tools like DALI and MultiProt, the biologists can identify new types of protein architecture, identify common structural core and discover evolutionary relationship between protein molecules. It helps to organize the growing set of known prot ...
... By comparing 3D structures of proteins with computational tools like DALI and MultiProt, the biologists can identify new types of protein architecture, identify common structural core and discover evolutionary relationship between protein molecules. It helps to organize the growing set of known prot ...
Atomic model of human Cystic Fibrosis Transmembrane
... pdb 1r0z; at left), for which only six amino acids at the centre of the loop (dotted line) are not seen and which thus directly allows to completely model this long insertion. The regulatory insertion starts with a typical amphipatic helix, which is centered on the hydrophobic cluster 10011001 (mous ...
... pdb 1r0z; at left), for which only six amino acids at the centre of the loop (dotted line) are not seen and which thus directly allows to completely model this long insertion. The regulatory insertion starts with a typical amphipatic helix, which is centered on the hydrophobic cluster 10011001 (mous ...
Publication JournalArticle (Originalarbeit in einer wissenschaftlichen
... HOX genes specify segment identity along the anteroposterior axis of the embryo. They code for transcription factors harbouring the highly conserved homeodomain and a YPWM motif, situated amino terminally to it. Despite their highly diverse functions in vivo, HOX proteins display similar biochemical ...
... HOX genes specify segment identity along the anteroposterior axis of the embryo. They code for transcription factors harbouring the highly conserved homeodomain and a YPWM motif, situated amino terminally to it. Despite their highly diverse functions in vivo, HOX proteins display similar biochemical ...
Interactions of bacterial and viral proteins with mitochondria
... An important aspect of the work in the laboratory is the daily discussion of the results obtained in the investigations and the strategy of the next experiments. All work is done in collaboration with experienced ...
... An important aspect of the work in the laboratory is the daily discussion of the results obtained in the investigations and the strategy of the next experiments. All work is done in collaboration with experienced ...
Full Text
... We have developed a novel representation of protein motifs that permits the rapid discovery of structural features in sets of protein sequences with a common structure or function. Many popular methods for representing protein motifs (consensus sequences, weight matrices, profiles, etc.) emphasize c ...
... We have developed a novel representation of protein motifs that permits the rapid discovery of structural features in sets of protein sequences with a common structure or function. Many popular methods for representing protein motifs (consensus sequences, weight matrices, profiles, etc.) emphasize c ...
Proteins - Clayton State University
... • A domain is a discrete locally folded unit of tertiary structure, usually with a specific function • A domain is typically 50-350 amino acids long, with regions of helices and sheets packed together • Proteins with similar functions often share a common domain • Proteins with multiple function ...
... • A domain is a discrete locally folded unit of tertiary structure, usually with a specific function • A domain is typically 50-350 amino acids long, with regions of helices and sheets packed together • Proteins with similar functions often share a common domain • Proteins with multiple function ...
Proteomics – 2D gels - Department of Chemistry and Biochemistry
... isoelectic point, they can be analyzed based on their mass. Proteins are separated by mass using Sodium Dodecyl Sulfate. SDS acts as a detergent to uncoil the protein and give it a negative charge, since the proteins have zero charge after the isoelectic focusing. The proteins migrate by applying an ...
... isoelectic point, they can be analyzed based on their mass. Proteins are separated by mass using Sodium Dodecyl Sulfate. SDS acts as a detergent to uncoil the protein and give it a negative charge, since the proteins have zero charge after the isoelectic focusing. The proteins migrate by applying an ...
Thermodynamics of Protein Folding
... compared to Klenow • Waksman et al. suggest fewer unfavorable electrostatic charges lead to global rearrangement of electrostatic distribution and more buried nonpolar space • LiCata suggests that unfolded Taq has more surface area, leading to greater relative destabilization of unfolded relative to ...
... compared to Klenow • Waksman et al. suggest fewer unfavorable electrostatic charges lead to global rearrangement of electrostatic distribution and more buried nonpolar space • LiCata suggests that unfolded Taq has more surface area, leading to greater relative destabilization of unfolded relative to ...
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.