biopython

v1.71.0

biopython v1.71.0 Bio.PDB.Chain.Chain

Initialize the class.

Link to this section Summary

Functions

__contains__()

True if a residue with given id is present in this chain

__delitem__()

Delete item

__getitem__()

Return the residue with given id

__init__()
_translate_id()

Translate sequence identifer to tuple form (PRIVATE)

get_unpacked_list()

Return a list of undisordered residues

has_id()

Return 1 if a residue with given id is present

Link to this section Functions

Link to this function __contains__()

True if a residue with given id is present in this chain.

Arguments:

  • id - (string, int, string) or int
Link to this function __delitem__()

Delete item.

Arguments:

  • id - (string, int, string) or int
Link to this function __getitem__()

Return the residue with given id.

The id of a residue is (hetero flag, sequence identifier, insertion code). If id is an int, it is translated to (“ “, id, “ “) by the _translate_id method.

Arguments:

  • id - (string, int, string) or int
Link to this function __init__()
Link to this function _translate_id()

Translate sequence identifer to tuple form (PRIVATE).

A residue id is normally a tuple (hetero flag, sequence identifier, insertion code). Since for most residues the hetero flag and the insertion code are blank (i.e. “ “), you can just use the sequence identifier to index a residue in a chain. The _translate_id method translates the sequence identifier to the (“ “, sequence identifier, “ “) tuple.

Arguments:

  • id - int, residue resseq
Link to this function get_unpacked_list()

Return a list of undisordered residues.

Some Residue objects hide several disordered residues (DisorderedResidue objects). This method unpacks them, ie. it returns a list of simple Residue objects.

Link to this function has_id()

Return 1 if a residue with given id is present.

The id of a residue is (hetero flag, sequence identifier, insertion code).

If id is an int, it is translated to (“ “, id, “ “) by the _translate_id method.

Arguments:

  • id - (string, int, string) or int