Index

A

angle_between_bases() (PDBNucleicAcids.BasePairRules.dsDNAWatsonCrickBasePairRules method) angle_between_planes() (in module PDBNucleicAcids.Geometry)

angle_between_vectors() (in module PDBNucleicAcids.Geometry) atom_from_central_hbond() (PDBNucleicAcids.BasePairRules.dsDNAWatsonCrickBasePairRules method) atoms_from_base_ring() (PDBNucleicAcids.BasePairRules.dsDNAWatsonCrickBasePairRules method)

B

BasePair (class in PDBNucleicAcids.NucleicAcid)

basepair_dataframe_from_mmcif() (in module PDBNucleicAcids.MMCIF2DataFrame) build_double_strands() (PDBNucleicAcids.NucleicAcid.DSNABuilder method)

C

calculate_normal_vector() (in module PDBNucleicAcids.Geometry)

check_validity() (PDBNucleicAcids.NucleicAcid.BasePair method)

D

distance() (PDBNucleicAcids.BasePairRules.dsDNAWatsonCrickBasePairRules method) DoubleStrandNucleicAcid (class in PDBNucleicAcids.NucleicAcid)

dsDNAWatsonCrickBasePairRules (class in PDBNucleicAcids.BasePairRules) DSNABuilder (class in PDBNucleicAcids.NucleicAcid)

G

get_atoms() (PDBNucleicAcids.NucleicAcid.BasePair method) (PDBNucleicAcids.NucleicAcid.DoubleStrandNucleicAcid method) (PDBNucleicAcids.NucleicAcid.NucleicAcid method) get_chain_id() (PDBNucleicAcids.NucleicAcid.NucleicAcid method) get_dataframe() (PDBNucleicAcids.NucleicAcid.DoubleStrandNucleicAcid method) get_i_strand() (PDBNucleicAcids.NucleicAcid.DoubleStrandNucleicAcid method)

get_j_strand() (PDBNucleicAcids.NucleicAcid.DoubleStrandNucleicAcid method) get_nucleic_acid_complex_type() (PDBNucleicAcids.NucleicAcid.DoubleStrandNucleicAcid method) get_nucleic_acid_type() (PDBNucleicAcids.NucleicAcid.NucleicAcid method) get_paired_segments() (in module PDBNucleicAcids.utils) get_sequence() (PDBNucleicAcids.NucleicAcid.NucleicAcid method) get_stagger() (PDBNucleicAcids.NucleicAcid.BasePair method) get_stagger_values() (PDBNucleicAcids.NucleicAcid.DoubleStrandNucleicAcid method)

I

is_candidate() (PDBNucleicAcids.BasePairRules.dsDNAWatsonCrickBasePairRules method) is_complementary() (PDBNucleicAcids.BasePairRules.dsDNAWatsonCrickBasePairRules method) is_different_residue() (PDBNucleicAcids.BasePairRules.dsDNAWatsonCrickBasePairRules method)

is_from_different_chain() (PDBNucleicAcids.BasePairRules.dsDNAWatsonCrickBasePairRules method) is_valid_angle() (PDBNucleicAcids.BasePairRules.dsDNAWatsonCrickBasePairRules method) is_valid_distance() (PDBNucleicAcids.BasePairRules.dsDNAWatsonCrickBasePairRules method) is_valid_stagger() (PDBNucleicAcids.BasePairRules.dsDNAWatsonCrickBasePairRules method)

M

module PDBNucleicAcids PDBNucleicAcids.BasePairRules PDBNucleicAcids.Geometry PDBNucleicAcids.MMCIF2DataFrame PDBNucleicAcids.NucleicAcid PDBNucleicAcids.utils

N

NABuilder (class in PDBNucleicAcids.NucleicAcid)

NucleicAcid (class in PDBNucleicAcids.NucleicAcid)

P

PDBNucleicAcids module PDBNucleicAcids.BasePairRules module PDBNucleicAcids.Geometry module PDBNucleicAcids.MMCIF2DataFrame module

PDBNucleicAcids.NucleicAcid module PDBNucleicAcids.utils module plane_separation() (in module PDBNucleicAcids.Geometry) polymer_dataframe_from_mmcif() (in module PDBNucleicAcids.MMCIF2DataFrame)

S

search_paired_base() (in module PDBNucleicAcids.NucleicAcid)

stagger() (PDBNucleicAcids.BasePairRules.dsDNAWatsonCrickBasePairRules method)