HSSP curve

From Protein Prediction 2 Winter Semester 2014
Revision as of 11:42, 20 November 2014 by Ppwikiuser (talk | contribs)

Introduction to HSSP curve?

HSSP is a derived database merging structural (3-D) and sequence (1-D) information. For each protein of known 3-D structure from the Protein Data Bank (PDB), the database has a multiple sequence alignment of all available homologues and a sequence profile characteristic of the family. The list of homologues is the result of a database search in SwissProt using a position-weighted dynamic programming method for sequence profile alignment (MaxHom). The database is updated frequently. The listed homologues are very likely to have the same 3-D structure as the PDB protein to which they have been aligned. As a result, the database is not only a database of aligned sequence families, but also a database of implied secondary and tertiary structures covering 29% of all SwissProt-stored sequences.

Different thresholds for HSSP-curve
Different thresholds for HSSP-curve

Existing visualisations

Core Functionalities

Task Implemented
Import BLAST results No
Parse BLAST results No
Visualize HSSP curve No
Ability to filter based on a threshold No