Structural Genomics @CNAG CRG


Protein bioinformatics resources

Name Type World Wide Web address
DATABASES
CATH S http://www.biochem.ucl.ac.uk/bsm/cath/
DBAli S http://www.salilab.org/DBAli/
GenBank S http://www.ncbi.nlm.nih.gov/Genbank/GenbankSearch.html
GeneCensus S http://bioinfo.mbb.yale.edu/genome
MODBASE S http://salilab.org/modbase/ 
MSD S http://www.ebi.ac.uk/msd/
NCBI S http://www.ncbi.nlm.nih.gov/
PDB S http://www.rcsb.org/pdb/
PSI S http://www.nigms.nih.gov/psi/
Sacch3D S http://genome-www.stanford.edu/Sacch3D/
SCOP S http://scop.mrc-lmb.cam.ac.uk/scop/
TIGR S http://www.tigr.org/tdb/mdb/mdbcomplete.html
TrEMBL S http://srs.ebi.ac.uk/
FOLD ASSIGNMENT
123D S http://123d.ncifcrf.gov/
3D-PSSM S http://www.sbg.bio.ic.ac.uk/~3dpssm/index2.html
BIOINBGU S http://www.cs.bgu.ac.il/~bioinbgu/
BLAST S http://www.ncbi.nlm.nih.gov/BLAST/
DALI S http://www.ebi.ac.uk/dali/
FASS S http://ffas.ljcrf.edu
FastA S http://www.ebi.ac.uk/fasta3/
FRSVR S http://fold.doe-mbi.ucla.edu/
FUGUE S http://www-cryst.bioc.cam.ac.uk/~fugue/
LOOPP S http://ser-loopp.tc.cornell.edu/cbsu/loopp.htm
PHD, TOPITS S http://www.predictprotein.org/
PHYRE S http://www.sbg.bio.ic.ac.uk/~phyre/
PROFIT P http://www.came.sbg.ac.at/
SAM-T99/T98 S http://www.cse.ucsc.edu/research/compbio/HMM-apps/
THREADER S http://bioinf.cs.ucl.ac.uk/threader/
UCLA-DOE FRSVR S http://fold.doe-mbi.ucla.edu/
SEQUENCE ALIGNMENT
BCM SERVER S http://searchlauncher.bcm.tmc.edu
BLAST2 S http://www.ncbi.nlm.nih.gov/blast/bl2seq/wblast2.cgi
BLOCK MAKER S http://blocks.fhcrc.org/blocks/blockmkr/make_blocks.html
CLUSTALW S http://www.ebi.ac.uk/clustalw/
FASTA3 S http://www.ebi.ac.uk/fasta3/
Gerstein Group S http://bioinfo.mbb.yale.edu/Align/
MULTALIN S http://prodes.toulouse.inra.fr/multalin/multalin.html
MODELING
3D-JIGSAW S http://www.bmm.icnet.uk/servers/3djigsaw/
CPH-Models S http://www.cbs.dtu.dk/services/CPHmodels/
COMPOSER P http://www-cryst.bioc.cam.ac.uk/
CONGEN P http://www.congenomics.com/congen/congen.html
TIGERFAMS S http://www.tigr.org/TIGRFAMs/index.shtml
ICM P http://www.molsoft.com/
InsightII P http://www.accelrys.com/
MODELLER P http://salilab.org/modeller/
ModWeb S http://salilab.org/modweb
QUANTA P http://www.accelrys.com/
SYBYL P http://www.tripos.com/
SCWRL P http://dunbrack.fccc.edu/SCWRL3.php
SWISS-MODEL S http://www.expasy.ch/swissmod/SWISS-MODEL.html
WHAT IF P http://www.cmbi.kun.nl/whatif/
MODEL ASSESSMENT
ANOLEA S http://protein.bio.puc.cl/cardex/servers/index.html
BIOTECH S http://biotech.embl-ebi.ac.uk:8400/
ERRAT S http://www.doe-mbi.ucla.edu/Services/ERRATv2/
PROCHECK P http://www.biochem.ucl.ac.uk/~roman/procheck/procheck.html
ProsaII P http://www.came.sbg.ac.at/
VERIFY3D S http://www.doe-mbi.ucla.edu/Services/Verify_3D/
WHATCHECK P http://www.sander.embl-heidelberg.de/whatcheck/
MODEL EVALUATION
CAFASP S http://bioinfo.pl/cafasp/
EVA S http://cubic.bioc.columbia.edu/eva/
LiveBench S http://bioinfo.pl/LiveBench/
OTHERS...
BioInfo S http://BioInfo.PL/meta/
CASP S http://predictioncenter.gc.ucdavis.edu/
GeneQuiz II S http://columba.ebi.ac.uk:8765/ext-genequiz/
Gerstein Group S http://bioinfo.mbb.yale.edu/genome/
META-PP S http://cubic.bioc.columbia.edu/pp/doc/meta_intro.html
PEDANT S http://pedant.gsf.de/
SearchLauncher S http://searchlauncher.bcm.tmc.edu/
WorkBench S http://workbench.sdsc.edu/
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