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Database Of Molecular Motions
The Database of Macromolecular Motions is a bioinformatics database and Software as a service, software-as-a-service tool that attempts to categorize macromolecular motions, sometimes also known as conformational change. It was originally developed by Mark Bender Gerstein, Mark B. Gerstein, Werner G. Krebs, Werner Krebs, and Nat Echols in the Molecular Biophysics & Biochemistry Department at Yale University. Discussion Since its introduction in the late 1990s, peer-reviewed papers on the database have received thousands of citations. The database has been mentioned in news articles in major scientific journals, book chapters, and elsewhere. Users can search the database for a particular motion by either protein name or Protein Data Bank ID number. Typically, however, users will enter the database via the Protein Data Bank, which often provides a hyperlink to the molmovdb entry for proteins found in both databases. The database includes a web-based tool (the Morph server) which ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Mark Bender Gerstein
Mark Bender Gerstein is an American scientist working in bioinformatics and Data Science. , he is co-director of the Yale Computational Biology and Bioinformatics program. Mark Gerstein is Albert L. Williams Professor of Biomedical Informatics, Professor of Molecular Biophysics & Biochemistry , Professor of Statistics & Data Science, and Professor of Computer Science at Yale University. In 2018, Gerstein was named co-director of thYale Center for Biomedical Data Science. Education After graduating from Harvard College summa cum laude with a Bachelor of Arts in physics in 1989, Gerstein did a PhD co-supervised by Ruth Lynden-Bell at the University of Cambridge and Cyrus Chothia at the Laboratory of Molecular Biology on conformational change in proteins, graduating in 1993. He then went on to postdoctoral research in bioinformatics at Stanford University from 1993 to 1996 supervised by Nobel-laureate Michael Levitt. Research Gerstein does research in the field of bioinformatics. ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Molecular Modelling
Molecular modelling encompasses all methods, theoretical and computational, used to model or mimic the behaviour of molecules. The methods are used in the fields of computational chemistry, drug design, computational biology and materials science to study molecular systems ranging from small chemical systems to large biological molecules and material assemblies. The simplest calculations can be performed by hand, but inevitably computers are required to perform molecular modelling of any reasonably sized system. The common feature of molecular modelling methods is the atomistic level description of the molecular systems. This may include treating atoms as the smallest individual unit (a molecular mechanics approach), or explicitly modelling protons and neutrons with its quarks, anti-quarks and gluons and electrons with its photons (a quantum chemistry approach). Molecular mechanics Molecular mechanics is one aspect of molecular modelling, as it involves the use of classical ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Cloud Applications
In meteorology, a cloud is an aerosol consisting of a visible mass of miniature liquid droplets, frozen crystals, or other particles suspended in the atmosphere of a planetary body or similar space. Water or various other chemicals may compose the droplets and crystals. On Earth, clouds are formed as a result of saturation of the air when it is cooled to its dew point, or when it gains sufficient moisture (usually in the form of water vapor) from an adjacent source to raise the dew point to the ambient temperature. They are seen in the Earth's homosphere, which includes the troposphere, stratosphere, and mesosphere. Nephology is the science of clouds, which is undertaken in the cloud physics branch of meteorology. There are two methods of naming clouds in their respective layers of the homosphere, Latin and common name. Genus types in the troposphere, the atmospheric layer closest to Earth's surface, have Latin names because of the universal adoption of Luke Howard's nomenc ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Biological Databases
Biological databases are libraries of biological sciences, collected from scientific experiments, published literature, high-throughput experiment technology, and computational analysis. They contain information from research areas including genomics, proteomics, metabolomics, microarray gene expression, and phylogenetics. Information contained in biological databases includes gene function, structure, localization (both cellular and chromosomal), clinical effects of mutations as well as similarities of biological sequences and structures. Biological databases can be classified by the kind of data they collect (see below). Broadly, there are molecular databases (for sequences, molecules, etc.), functional databases (for physiology, enzyme activities, phenotypes, ecology etc), taxonomic databases (for species and other taxonomic ranks), images and other media, or specimens (for museum collections etc.) Databases are important tools in assisting scientists to analyze and explain ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Database Of Protein Conformational Diversity
The Database of protein conformational diversity (PCDB) is a database of diversity of protein tertiary structures within protein domains as determined by X-ray crystallography#Biological macromolecular crystallography, X-ray crystallography. Proteins are inherently Protein motions, flexible and this database collects information on this subject for use in molecular research. It uses the CATH, CATH database as a source of structures for each protein and reports the range of differences in the structures based on their superposition and reports a maximum RMSD. The interface for the database allows researchers to find proteins with a range of conformational flexibility allowing them to find highly flexible proteins for example. The database is run and maintained by a group of researchers based at the Universidad Nacional de Quilmes in Argentina. See also *Crystallography *Protein structure References External links * Biological databases Protein structure Crystallographic da ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
DNASTAR
DNASTAR is a global bioinformatics software company incorporated in 1984 that is headquartered in Madison, Wisconsin. DNASTAR develops and sells software for sequence analysis in the fields of genomics, molecular biology, and structural biology. Software DNASTAR software (Lasergene) first gained popularity in the 1980s and 1990s for its sequence assembly and analysis capabilities of Sanger sequencing data. Lasergene 17.3.3 was released in June 2022. DNASTAR software is available for desktop computers running Mac OS X, Windows, and Linux as well as for use on Amazon Web Services. In 2007, DNASTAR expanded their offerings to include software for next-generation sequencing and structural biology. DNASTAR's next-gen software supports data from Illumina, Ion Torrent, and Pacific Biosciences and allows the user to assemble, align, analyze and visualize genomic data. Lasergene's use in next-generation sequence assembly and analysis was contributed as a chapter, written by company sci ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
University Of Alberta
The University of Alberta, also known as U of A or UAlberta, is a public research university located in Edmonton, Alberta, Canada. It was founded in 1908 by Alexander Cameron Rutherford,"A Gentleman of Strathcona – Alexander Cameron Rutherford", Douglas R. Babcock, 1989, The University of Calgary Press, 2500 University Drive NW, Calgary, Alberta, Canada, the first premier of Alberta, and Henry Marshall Tory,"Henry Marshall Tory, A Biography", originally published 1954, current edition January 1992, E.A. Corbett, Toronto: Ryerson Press, the university's first president. It was enabled through the Post-secondary Learning Act''.'' The university is considered a "comprehensive academic and research university" (CARU), which means that it offers a range of academic and professional programs that generally lead to undergraduate and graduate level credentials. The university comprises four campuses in Edmonton, an Augustana Campus in Camrose, and a staff centre in downtown Cal ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Normal Mode
A normal mode of a dynamical system is a pattern of motion in which all parts of the system move sinusoidally with the same frequency and with a fixed phase relation. The free motion described by the normal modes takes place at fixed frequencies. These fixed frequencies of the normal modes of a system are known as its natural frequency, natural frequencies or Resonance, resonant frequencies. A physical object, such as a building, bridge, or molecule, has a set of normal modes and their natural frequencies that depend on its structure, materials and boundary conditions. The most general motion of a system is a Superposition principle, superposition of its normal modes. The modes are normal in the sense that they can move independently, that is to say that an excitation of one mode will never cause motion of a different mode. In mathematical terms, normal modes are Orthogonality, orthogonal to each other. General definitions Mode In the Wave, wave theory of physics and ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Interpolate
In the mathematical field of numerical analysis, interpolation is a type of estimation, a method of constructing (finding) new data points based on the range of a discrete set of known data points. In engineering and science, one often has a number of data points, obtained by sampling or experimentation, which represent the values of a function for a limited number of values of the independent variable. It is often required to interpolate; that is, estimate the value of that function for an intermediate value of the independent variable. A closely related problem is the approximation of a complicated function by a simple function. Suppose the formula for some given function is known, but too complicated to evaluate efficiently. A few data points from the original function can be interpolated to produce a simpler function which is still fairly close to the original. The resulting gain in simplicity may outweigh the loss from interpolation error and give better performance in c ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Protein Data Bank
The Protein Data Bank (PDB) is a database for the three-dimensional structural data of large biological molecules, such as proteins and nucleic acids. The data, typically obtained by X-ray crystallography, NMR spectroscopy, or, increasingly, cryo-electron microscopy, and submitted by biologists and biochemists from around the world, are freely accessible on the Internet via the websites of its member organisations (PDBe, PDBj, RCSB, and BMRB). The PDB is overseen by an organization called the Worldwide Protein Data Bank, wwPDB. The PDB is a key in areas of structural biology, such as structural genomics. Most major scientific journals and some funding agencies now require scientists to submit their structure data to the PDB. Many other databases use protein structures deposited in the PDB. For example, SCOP and CATH classify protein structures, while PDBsum provides a graphic overview of PDB entries using information from other sources, such as Gene ontology. History Two force ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Werner G
Werner may refer to: People * Werner (name), origin of the name and people with this name as surname and given name Fictional characters * Werner (comics), a German comic book character * Werner Von Croy, a fictional character in the ''Tomb Raider'' series * Werner von Strucker, a fictional character in the Marvel Comics universe * Werner, a fictional character in '' Darwin's Soldiers'' * Werner Ziegler, a fictional character from tv show Better Call Saul Geography *Werner, West Virginia * Mount Werner, a mountain that includes the Steamboat Ski Resort, in the Park Range of Colorado * Werner (crater), a crater in the south-central highlands of the Moon * Werner projection, an equal-area map projection preserving distances along parallels, central meridian and from the North pole Companies * Carsey-Werner, an American television and film production studio * Werner Enterprises, a Nebraska-based trucking company * Werner Co., a manufacturer of ladders * Werner Motors The Werner ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Protein
Proteins are large biomolecules and macromolecules that comprise one or more long chains of amino acid residues. Proteins perform a vast array of functions within organisms, including catalysing metabolic reactions, DNA replication, responding to stimuli, providing structure to cells and organisms, and transporting molecules from one location to another. Proteins differ from one another primarily in their sequence of amino acids, which is dictated by the nucleotide sequence of their genes, and which usually results in protein folding into a specific 3D structure that determines its activity. A linear chain of amino acid residues is called a polypeptide. A protein contains at least one long polypeptide. Short polypeptides, containing less than 20–30 residues, are rarely considered to be proteins and are commonly called peptides. The individual amino acid residues are bonded together by peptide bonds and adjacent amino acid residues. The sequence of amino acid residue ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
