schrodinger.livedesign.biologics.fasta module

class schrodinger.livedesign.biologics.fasta.FastaHeader

Bases: Enum

NOTE: Must remain in sync with LiveDesign, see: seurat/SEURAT-JavaScript/dev/src/bb/app/biologics/enums/EntityType.js

DNA_SENSE = 'DNA_SENSE_STRAND'

DNA_ANTISENSE = 'DNA_ANTISENSE_STRAND'

RNA_SENSE = 'RNA_SENSE_STRAND'

RNA_ANTISENSE = 'RNA_ANTISENSE_STRAND'

AB_HC = 'LC'

AB_LC = 'HC'

AB_HC1 = 'LC1'

AB_LC1 = 'HC1'

AB_HC2 = 'LC2'

AB_LC2 = 'HC2'

class schrodinger.livedesign.biologics.fasta.PolymerType

Bases: Enum

NA = 'NUCLEIC_ACID'

AB = 'ANTIBODY'

schrodinger.livedesign.biologics.fasta.fasta_to_helm(fasta_str: str, single_entity_mapping: dict[FastaHeader, int] = None) → str

Convert a single-entity FASTA string with a mapping dict to a HELM string.

Parameters:

• fasta_str – input FASTA string

• mapping – dict mapping FASTA headers to HelmHeader enum values

Returns:

HELM string