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Lattice models in biophysics represent a class of statistical-mechanical models which consider a biological macromacromolecule (such as DNA, protein, actin, etc.) as a lattice of units, each unit being in different states or conformations.
A crystal system is a set of point groups in which the point groups themselves and their corresponding space groups are assigned to a lattice system. Of the 32 crystallographic point groups that exist in three dimensions, most are assigned to only one lattice system, in which case both the crystal and lattice systems have the same name. However ...
On-lattice models such as cellular automata or cellular potts restrict the spatial arrangement of the cells to a fixed grid. The mechanical interactions are then carried out according to literature-based rules (cellular automata) [4] or by minimizing the total energy of the system (cellular potts), [5] resulting in cells being displaced from one grid point to another.
A crystal system is a set of point groups in which the point groups themselves and their corresponding space groups are assigned to a lattice system. Of the 32 point groups that exist in three dimensions, most are assigned to only one lattice system, in which case the crystal system and lattice system both have the same name.
A primitive cell is a unit cell that contains exactly one lattice point. For unit cells generally, lattice points that are shared by n cells are counted as 1 / n of the lattice points contained in each of those cells; so for example a primitive unit cell in three dimensions which has lattice points only at its eight vertices is considered to contain 1 / 8 of each of them. [3]
Lattice shape is an important factor in the accuracy of lattice protein models. Changing lattice shape can dramatically alter the shape of the energetically favorable conformations. [ 2 ] It can also add unrealistic constraints to the protein structure such as in the case of the parity problem where in square and cubic lattices residues of the ...
In crystallography, the tetragonal crystal system is one of the 7 crystal systems. Tetragonal crystal lattices result from stretching a cubic lattice along one of its lattice vectors, so that the cube becomes a rectangular prism with a square base ( a by a ) and height ( c , which is different from a ).
A lattice in the sense of a 3-dimensional array of regularly spaced points coinciding with e.g. the atom or molecule positions in a crystal, or more generally, the orbit of a group action under translational symmetry, is a translation of the translation lattice: a coset, which need not contain the origin, and therefore need not be a lattice in ...