phenix.protocols.protocol_search_fit module

class phenix.protocols.protocol_search_fit.PhenixProtSearchFit(**kwargs)

Bases: phenix.protocols.protocol_refinement_base.PhenixProtRunRefinementBase

given a chain of n alanines, a 3D map and a sequence search for the subsequence of n aminoacids that better fits in the density. Only works if the atomic structure has a single chain

FITTEDFILE = 'fitted.mrc'

createOutputStep()

createTable()

Create table and clean it if needed

extractNumber(filename)

mutateStep(firstaa, firstAAinChain, atomStructSize, chainName, numberOfSteps)

mutate atom struct inputStructure using aa in sequence inputSequence starting at firstaa

refineStep2()

version = ''