This module defines some functions for handling atomic classes and data.
Returns list of fragments, connected subsets in atoms. See also
saveAtoms(atoms, filename=None, **kwargs)¶
Save atoms in ProDy internal format. All
Atomicclasses are accepted as atoms argument. This function saves user set atomic data as well. Note that title of the
AtomGroupinstance is used as the filename when atoms is not an
AtomGroup. To avoid overwriting an existing file with the same name, specify a filename.
Returns True if word is reserved for internal data labeling or atom selections. See
listReservedWords()for a list of reserved words.
Returns list of words that are reserved for atom selections and internal variables. These words are: abs, acidic, acos, acyclic, aliphatic, all, altloc, aminoacid, and, anisou, aromatic, as, asin, at, atan, backbone, backbonefull, basic, bb, bbfull, bend, beta, bmap, bonded, bonds, bridge, buried, ca, calpha, carbon, ceil, cg, chain, charge, charged, chid, chindex, coil, coordinates, cos, cosh, cslabels, cyclic, dummy, element, exbonded, exp, extended, exwithin, floor, fragindex, fragment, heavy, helix, helix310, helixpi, heme, hetero, hydrogen, hydrophobic, icode, index, ion, large, lipid, log, log10, mapped, mass, medium, n_atoms, n_csets, name, neutral, nitrogen, noh, none, nonstdaa, not, nucleic, nucleobase, nucleoside, nucleotide, numbonds, occupancy, of, or, oxygen, polar, protein, purine, pyrimidine, radius, resid, resindex, resname, resnum, same, sc, secondary, secstr, segindex, segment, segname, sequence, serial, sidechain, siguij, sin, sinh, small, sq, sqrt, stdaa, sugar, sulfur, surface, tahn, tan, title, to, turn, type, water, within, x, y, z.