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...ng has found multiple applications in the study of protein functions and [[protein-ligand interaction]]s. ...

..., a fragment structure (represented by a "paradigm" fragment chosen from a protein in the PDB) and optionally, a 4-dimensional tensor of pairwise sequence cov ...ach family contained a single known structure (parent) from the Brookhaven protein Data Bank. These were a subset of the PDBSelect-25 list, having no more tha ...

== Protein folding == ...es/the-power-of-charity-for-protein-design/|title=The Power of Charity For Protein Design|publisher=University of Washington|accessdate=2014-08-15}}</ref> ...

{{Infobox protein family | OPM protein = ...

{{Infobox protein family | OPM protein = ...

...linked. In simpler terms, it helps scientists understand which parts of a protein are working together and how they have changed over evolutionary time.<ref> ...nal | title=Evolutionarily conserved pathways of energetic connectivity in protein families | author=Lockless SW, Ranaganathan R | journal=Science | volume=28 ...

...st3 = M |name-list-style=vanc | year = 2009 | title = Reaching the protein folding speed limit with large, sub-microsecond pressure jumps. | journal = Nature ...

...ref>Zhou Y, Abagyan R (2002) "Efficient stochastic global optimization for protein structure prediction", Rigidity Theory and Applications, eds. Thorpe MF, D ...

...[[Docking (molecular)|docking]], [[active site]] detection, and [[protein folding]].<ref>Farver, J., Merz, K.M. (2010). The Utility of the HSAB Principle via ...

| OPM protein = ...The subunits also have a [[hydrophobic]] core, which helps drive [[protein folding]]. The core is made up of 17 [[aliphatic]] amino acids. ...

...rarely to be observed on a computer timescale. Examples include [[protein folding]], [[chemical reaction]]s and [[nucleation]]. Standard simulation tools suc ...and fold on itself. The aim of the method is to reproduce precisely those folding moments. ...

{{Infobox protein family | OPM protein = ...

...t D, Kolinski M, Wieteska L, Dawid AE, Kolinski A | title = Coarse-Grained Protein Models and Their Applications | journal = Chemical Reviews | volume = 116 | ...JM | display-authors = 6 | title = SimRNA: a coarse-grained method for RNA folding simulations and 3D structure prediction | journal = Nucleic Acids Research ...

...ed in many measurements of intramolecular dynamics such as DNA/RNA/protein folding/unfolding and other conformational changes, and intermolecular dynamics suc ...[[protein folding]], DNA and RNA folding go through multiple interactions, folding pathways, and intermediates before reaching their native states. ...

...9704440727| title = Geometric Separators and Their Applications to Protein Folding in the HP-Model| year = 2007| last1 = Fu | first1 = B. | last2 = Wang | fir ...

...nd ionic or electrostatic interaction. By knowing how these factors affect protein adsorption, they can then be manipulated by machining, alloying, and other ...ast=Rechendorff|first=Kristian|title=The influence of surface roughness on protein adsorption|url=http://phys.au.dk/fileadmin/site_files/publikationer/phd/Kri ...

...blinking and switching behaviour of single molecules of green fluorescent protein|s2cid=4313830 |doi-access=free }}</ref><ref>{{cite journal |doi=10.1103/Phy ...

...ase A1 activity: crystal structure of a chimeric pancreatic lipase-related protein 2 from guinea pig|journal=Structure|volume=4|issue=11 |pages= 1363–74 |year ...Ried M, Leike K, Tijssen P, Kleinschmidt J, Hallek M |title=The VP1 capsid protein of adeno-associated virus type 2 is carrying a phospholipase A2 domain requ ...

...usion of [[biological membranes]] is mediated by [[membrane fusion protein|protein]]s. Regardless of the complexity of the system, fusion essentially occurs d ...n water and play important roles in various biological phenomena including folding and stabilization of macromolecules such as [[proteins]] and fusion of cell ...

...arted active work on attempting to use AlphaGo Zero technology for protein folding, and stated it would soon publish new findings.<ref>{{cite news|title='It's ...