Difference between revisions of "KSH HW1 Protein analysis"
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imported>Seung-hoon Kim (Created page with "<h2> Protein Pattern Analysis</h2> <h2>Motif, Pattern, Profile, Signature</h2> <p> </p> <h2>1. PROSITE (prosite.expasy.org)</h2> <p><sup>1)</sup>A protein database ...") |
imported>Seung-hoon Kim |
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<p>They are manually curated by a team of Swiss Institute of Bioinformatics</p> | <p>They are manually curated by a team of Swiss Institute of Bioinformatics</p> | ||
| − | <h2>2. ISREC profile ( | + | <h2>2. ISREC profile (bioinf.man.ac.uk/dbbrowser/bioactivity/newpfscan.html)</h2> |
<p> </p> | <p> </p> | ||
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<p> </p> | <p> </p> | ||
| − | <h3>Etc - PIR (pir.georgetown.edu/pirwww/index.shtml), PSI-BLAST( | + | <h3>6. Etc - PIR (pir.georgetown.edu/pirwww/index.shtml),</h3> |
| + | |||
| + | <h3>PSI-BLAST(blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&PAGE=Proteins&PROGRAM=blastp&RUN_PSIBLAST=on)</h3> | ||
<p>To search similarity among amino acid sequences . PIR - Protein Informatics Resourse , PSI - Position Specific Iterated</p> | <p>To search similarity among amino acid sequences . PIR - Protein Informatics Resourse , PSI - Position Specific Iterated</p> | ||
Revision as of 23:18, 17 June 2016
Contents
- 1 Protein Pattern Analysis
- 2 Motif, Pattern, Profile, Signature
- 3 1. PROSITE (prosite.expasy.org)
- 4 2. ISREC profile (bioinf.man.ac.uk/dbbrowser/bioactivity/newpfscan.html)
- 5 3. BLOCKS (blocks.fhcrc.org)
- 6 4. Pfam (pfam.xfam.ac.uk)
- 7 5. PRINTS (bioinf.man.ac.uk/dbbrowser/PRINTS)
- 8 Protein Structure Analysis
- 9 1. SWISS-MODEL (swissmodel.expasy.org)
- 10 2. CPHmodels
- 11 3. CASP, Critical Assessment of Structure Prediction (predictioncenter.org)
- 12 Reference
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
