xmipp3.protocols.protocol_convert_pdb module

class xmipp3.protocols.protocol_convert_pdb.XmippProtConvertPdb(**args)

Bases: ProtInitialVolume

Converts atomic structure files in PDB (Protein Data Bank) format into volumetric maps. Converting a PDB to a volume generates a simulated electron density map, useful for validating atomic models, fitting into experimental maps or performing docking.

OUTPUT_NAME1 = 'outputVolume'

OUTPUT_NAME2 = 'outputVolumes'

OUTPUT_NAME3 = 'outputPdb'

OUTPUT_NAME4 = 'outputAtomStructs'

createOutput(isSet, samplingR)

processConversion(pdb, samplingR, isSet)

This step runs the pdb conversion.