Propred1, IEDB Analysis resourse and epitoolkit, hope they'll of use.....

Thanks so much anita, I'll try it.

IEDB is a very good tool, also take a look at CBS for more services [link below].

Regards

http://www.cbs.dtu.dk/services/

list of important site:

1)

http://bmerc-www.bu.edu/psa/

http://au.expasy.org/

http://www.rcsb.org/pdb/index.html

http://www.umass.edu/microbio/chime/morpher/

2)

http://www.blocks.fhcrc.org/

http://www.cmpharm.ucsf.edu/kuntz/dock.html

http://www.psc.edu/biomed/genedoc/

http://molvis.sdsc.edu/visres/index.html

http://isites.bio.rpi.edu/

http://meme.sdsc.edu/meme/website/mast-intro.html

http://www.povray.org/

http://www.salilab.org/

http://www.cse.ucsc.edu/research/compbio/sam.html

http://www.igc.ethz.ch/gromos/

http://xray.bmc.uu.se/usf/

http://www.ks.uiuc.edu/Research/vmd/

http://www.pdb.com.

http://www.expasy.ch/swiss

http://www.msi.com

3)

http://pbil.ibcp.fr/html/pbil_index.html

http://www.accelrys.com/about/msi.html

http://www.tdi.es/programas/osa.htm

http://www.fsagx.ac.be/

http://www.serenasoft.com/index.html

4)

http://www.ebi.ac.uk/clustalw/

http://www.ibc.wustl.edu/

http://www.cse.ucsc.edu/research/compbio/HMM-apps/HMM-applications.html

http://www.gcg.com

http://www-cryst.bioc.cam.ac.uk/~joy/

5)

http://www.blocks.fhcrc.org/blocks/

http://ca.expasy.org/enzyme/

http://ca.expasy.org/prosite/

http://www-cryst.bioc.cam.ac.uk/~campass/

http://www.protein.bio.msu.su/issd/

http://people.ouc.bc.ca/woodcock/molecule/molecule.html

http://www.ncbi.nlm.nih.gov/

http://pfam.wustl.edu./index.html

http://scop.mrc-lmb.cam.ac.uk/scop/

http://www.rcsb.org/pdb/

6)

http://www.ch.embnet.org/software/COILS_form.html

http://insulin.brunel.ac.uk/psipred/

7)

http://www.proweb.org/proweb/Tools/WU-blast.html

http://www.imb-jena.de/ImgLibPDB/pages/siteDir/IMAGE_SITE.shtml

http://www.ncbi.nlm.nih.gov/Structure/VAST/vast.shtml

http://pbil.ibcp.fr/cgi-bin/npsa_automat.pl?page=npsa_prosite.html

http://www.ncbi.nlm.nih.gov/blast/psiblast.cgi?Jform=1

http://searchlauncher.bcm.tmc.edu/

http://www.sbg.bio.ic.ac.uk/~3dpssm/

8)

http://blocks.fhcrc.org/blocks/blocks_search.html

http://www.ebi.ac.uk/interpro/

http://www.bioinf.man.ac.uk/dbbrowser/PRINTS/

http://ca.expasy.org/tools/scanprosite/

http://portray.bmc.uu.se/

http://prodes.toulouse.inra.fr/prodom/current/html/home.php

9)

http://ca.expasy.org/

http://pbil.ibcp.fr/cgi-bin/npsa_automat.pl?page=/NPSA/npsa_server.html

http://cubic.bioc.columbia.edu/predictprotein/

10)

http://www.bmm.icnet.uk/~3djigsaw/

http://www-cryst.bioc.cam.ac.uk/

http://physchem.pharm.kitasato-u.ac.jp/FAMS/fams.html

http://www.expasy.org/swissmod/SWISS-MODEL.html

11)

http://cl.sdsc.edu/ce.html

http://portray.bmc.uu.se/cgi-bin/dennis/dejavu.pl

http://www.doe-mbi.ucla.edu/~fischer/BENCH/benchmark1.html

http://honduras.bio.rpi.edu/~isites/ISLserver3.html

http://www.ncbi.nlm.nih.gov/Structure/VAST/vastsearch.html

12)

http://www.umass.edu/microbio/chime/explorer/

13)

http://barton.ebi.ac.uk/

http://cmm.info.nih.gov/modeling/

http://www.biochem.ucl.ac.uk/~orengo/ssap.html

http://molvis.chem.indiana.edu/

http://www.bioqmed.ufrj.br/bioquimica/lpbc/index.html

http://www.chemi.muni.cz/lbsd/lbsd.html

http://ase.tufts.edu/biology/MolecVisual/main/mainframe.html

http://www.tripos.com/

14)

http://www.bmm.icnet.uk/people/rob/CCP11BBS/

http://www.healthtech.com/

http://www.bioinformatics.ca/

http://www.usm.maine.edu/~rhodes/GRHomePage.html

http://www.worthpublishers.com/lehninger/con_index.htm?99bwl

http://www.biology.washington.edu/molecular/

http://www.whfreeman.com/stryer/con_index.htm?99awl

15)

http://guitar.rockefeller.edu/

http://wbiomed.curtin.edu.au/teach/biochem/index.html

http://molvis.sdsc.edu/visres/index.html

16)

http://www.jdaross.cwc.net/cellmediated_immunity.htm

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/H/HLA.html

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/G/Glycoproteins.html

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/P/ProteinKinesis.html#Protein_Kinesis:_Getting_Proteins_to_Their_Destination

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/P/P.html#protease

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/P/Proteomics.html

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/P/PrimaryStructure.html

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/S/SecondaryStructure.html

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/T/TertiaryStructure.html

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/Q/QuaternaryStructure.html

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/P/Proteomics.html#3D_structure

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/A/AntigenReceptors.html

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/B/B_and_Tcells.html

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/B/B_and_Tcells.html#cd8

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/B/B_and_Tcells.html#cd4

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/C/ClonalSelection.html

thanks a lot..,for your help. there are so many tools so it can be my reference. I've analysed epitope mapping (linear and conformational). it's success because of you...