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KSH HW1 Protein analysis

Revision as of 23:18, 17 June 2016 by imported>Seung-hoon Kim

Contents

 Protein Pattern Analysis

Motif, Pattern, Profile, Signature

 

1. PROSITE (prosite.expasy.org)

1)A protein database which consists of the protein families, domains, functional sites, amino acid patterns and profiles.

They are manually curated by a team of Swiss Institute of Bioinformatics

2. ISREC profile (bioinf.man.ac.uk/dbbrowser/bioactivity/newpfscan.html)

 

3. BLOCKS (blocks.fhcrc.org)

 

4. Pfam (pfam.xfam.ac.uk)

 

5. PRINTS (bioinf.man.ac.uk/dbbrowser/PRINTS)

 

6. Etc - PIR (pir.georgetown.edu/pirwww/index.shtml),

PSI-BLAST(blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&PAGE=Proteins&PROGRAM=blastp&RUN_PSIBLAST=on)

To search similarity among amino acid sequences . PIR - Protein Informatics Resourse , PSI - Position Specific Iterated


 Protein Structure Analysis

1. SWISS-MODEL (swissmodel.expasy.org)

2. CPHmodels

3. CASP, Critical Assessment of Structure Prediction (predictioncenter.org)

Reference

*** All these websites are listed in the book called 'Bioinformatics with bioperl' authored by Young-chang Kim

1) https://en.wikipedia.org/wiki/PROSITE

 

 

Seung-hoon Kim