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Bio::Prosite::Record Class Reference

List of all members.


Detailed Description

Holds information from a Prosite record.

Members:
name           ID of the record.  e.g. ADH_ZINC
type           Type of entry.  e.g. PATTERN, MATRIX, or RULE
accession      e.g. PS00387
created        Date the entry was created.  (MMM-YYYY)
data_update    Date the 'primary' data was last updated.
info_update    Date data other than 'primary' data was last updated.
pdoc           ID of the PROSITE DOCumentation.

description    Free-format description.
pattern        The PROSITE pattern.  See docs.
matrix         List of strings that describes a matrix entry.
rules          List of rule definitions.  (strings)

NUMERICAL RESULTS
nr_sp_release  SwissProt release.
nr_sp_seqs     Number of seqs in that release of Swiss-Prot. (int)
nr_total       Number of hits in Swiss-Prot.  tuple of (hits, seqs)
nr_positive    True positives.  tuple of (hits, seqs)
nr_unknown     Could be positives.  tuple of (hits, seqs)
nr_false_pos   False positives.  tuple of (hits, seqs)
nr_false_neg   False negatives.  (int)
nr_partial     False negatives, because they are fragments. (int)

COMMENTS
cc_taxo_range  Taxonomic range.  See docs for format
cc_max_repeat  Maximum number of repetitions in a protein
cc_site        Interesting site.  list of tuples (pattern pos, desc.)
cc_skip_flag   Can this entry be ignored?
cc_matrix_type
cc_scaling_db
cc_author
cc_ft_key
cc_ft_desc

DATA BANK REFERENCES - The following are all
                       lists of tuples (swiss-prot accession,
                                        swiss-prot name)
dr_positive
dr_false_neg
dr_false_pos
dr_potential   Potential hits, but fingerprint region not yet available.
dr_unknown     Could possibly belong

pdb_structs    List of PDB entries.

Definition at line 50 of file __init__.py.


Public Member Functions

def __init__

Public Attributes

 accession
 cc_max_repeat
 cc_site
 cc_skip_flag
 cc_taxo_range
 created
 data_update
 description
 dr_false_neg
 dr_false_pos
 dr_positive
 dr_potential
 dr_unknown
 info_update
 matrix
 name
 nr_false_neg
 nr_false_pos
 nr_partial
 nr_positive
 nr_sp_release
 nr_sp_seqs
 nr_total
 nr_unknown
 pattern
 pdb_structs
 pdoc
 rules
 type

The documentation for this class was generated from the following file:

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