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  2. Split-intein circular ligation of peptides and proteins

    en.wikipedia.org/wiki/Split-intein_circular...

    As implemented there is also some constraint on the peptide sequence of the cyclic sequence; for example, libraries may use the sequence S GXX..XXP L to increase the efficiency of circularization of the peptide. [1] [2] SICLOPPS is frequently used with a library of randomized DNA sequence that permits the simultaneous production and screening ...

  3. Cyclic peptide - Wikipedia

    en.wikipedia.org/wiki/Cyclic_peptide

    α-Amanitin Bacitracin Ciclosporin. Cyclic peptides are polypeptide chains which contain a circular sequence of bonds. [1] This can be through a connection between the amino and carboxyl ends of the peptide, for example in cyclosporin; a connection between the amino end and a side chain, for example in bacitracin; the carboxyl end and a side chain, for example in colistin; or two side chains ...

  4. Docking (molecular) - Wikipedia

    en.wikipedia.org/wiki/Docking_(molecular)

    Docking flow-chart overview. To perform a docking screen, the first requirement is a structure of the protein of interest. Usually the structure has been determined using a biophysical technique such as X-ray crystallography, NMR spectroscopy or; cryo-electron microscopy (cryo-EM), but can also derive from homology modeling construction. This ...

  5. Macromolecular docking - Wikipedia

    en.wikipedia.org/wiki/Macromolecular_docking

    Macromolecular docking is the computational modelling of the quaternary structure of complexes formed by two or more interacting biological macromolecules. Protein –protein complexes are the most commonly attempted targets of such modelling, followed by protein– nucleic acid complexes.

  6. Protein–ligand docking - Wikipedia

    en.wikipedia.org/wiki/Protein–ligand_docking

    The goal of protein–ligand docking is to predict the position and orientation of a ligand (a small molecule) when it is bound to a protein receptor or enzyme. [1] Pharmaceutical research employs docking techniques for a variety of purposes, most notably in the virtual screening of large databases of available chemicals in order to select ...

  7. Ribosomally synthesized and post-translationally modified ...

    en.wikipedia.org/wiki/Ribosomally_synthesized...

    This peptide consists of a core peptide segment which is typically preceded (and occasionally followed) by a leader peptide segment and is typically ~20-110 residues long. The leader peptide is usually important for enabling enzymatic processing of the precursor peptide via aiding in recognition of the core peptide by biosynthetic enzymes and ...

  8. Cyclotide - Wikipedia

    en.wikipedia.org/wiki/Cyclotide

    The stunting effect of kalata B1 cyclic peptide on growth and development of Helicoverpa punctigera, a caterpillar from the Lepidopteran order. [6]Cyclotides have been reported to have a wide range of biological activities, including anti-HIV, insecticidal, anti-tumour, antifouling, anti-microbial, hemolytic, neurotensin antagonism, trypsin inhibition, and uterotonic activities.

  9. Searching the conformational space for docking - Wikipedia

    en.wikipedia.org/wiki/Searching_the...

    Flexible docking in addition considers all possible conformations of the protein paired with all possible conformations of the ligand. [ 1 ] With present computing resources , it is impossible to exhaustively explore these search spaces; instead, there are many strategies which attempt to sample the search space with optimal efficiency.