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When performing a decoy search, Mascot generates a randomized sequence of the same length for every sequence in the target database. The decoy sequence is generated such that it has the same average amino acid composition as the target database. The FDR is estimated as the ratio of decoy database matches to target database matches.
1-Chlorobutane is an alkyl halide with the chemical formula CH 3 (CH 2) 3 Cl. It is a colorless, flammable liquid. It is a colorless, flammable liquid. Preparation and reactions
Mass of b 2-ions are listed in Table 2, as well as single amino acids that have equal mass to b 2-ions. [15] The mass of b 2-ion = mass of two amino acid residues + 1. Table 2. Mass of b2-ions in peptide fragmentation [16] Identify a sequence ion series by the same mass difference, which matches one of the amino acid residue masses (see Table 1).
database of protein similarities computed using FASTA: Protein model databases Swiss-model: server and repository for protein structure models Protein model databases AAindex: database of amino acid indices, amino acid mutation matrices, and pair-wise contact potentials Protein model databases BioGRID: Samuel Lunenfeld Research Institute
FASTA takes a given nucleotide or amino acid sequence and searches a corresponding sequence database by using local sequence alignment to find matches of similar database sequences. The FASTA program follows a largely heuristic method which contributes to the high speed of its execution.
The prize, seen as the pinnacle of scientific achievement, carries a cash award of 11 million Swedish kronor ($1 million). Proteins, a string of amino acid molecules, are the building blocks of life.
UniProt Archive (UniParc) is a comprehensive and non-redundant database, which contains all the protein sequences from the main, publicly available protein sequence databases. [17] Proteins may exist in several different source databases, and in multiple copies in the same database.
Other non-free, shareware programs include ICM-Browser, [23] MDL Chime, UCSF Chimera, Swiss-PDB Viewer, [24] StarBiochem [25] (a Java-based interactive molecular viewer with integrated search of protein databank), Sirius, and VisProt3DS [26] (a tool for Protein Visualization in 3D stereoscopic view in anaglyph and other modes), and Discovery ...