Command List (ls)

pdb
Searches the PDB (Protein Databank at http://www.pdb.org) by accession code. Brings you to the protein structure summary page. For example, to find the structure of Arabidopsis Tom20 by it's PDB accession code, use: pdb 1ZU2
412 uses - Created 2008-01-10 04:04 - Last used 2010-07-20 22:58 - Nominate - Description - http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=%s

uniprot
Uniprot protein knowledgebase keyword search.
320 uses - Created 2008-08-26 07:11 - Last used 2010-07-10 07:03 - Nominate - Description - http://www.uniprot.org/uniprot/?query=%s&sort=score

kegg
KEGG Search. Kegg is a great biological resource. To find entries connected with glycolysis in KEGG kegg glycolysis To find entries with given protein knowing id kegg y1313 To find entries for gene with given id kegg glk
268 uses - Created 2009-10-16 08:24 - Last used 2010-06-02 07:02 - Nominate - Description - http://www.genome.jp/dbget-bin/www_bfind_sub?mode=bfind&max_hit=1000&dbkey=kegg&keywords=%s

genome
UCSC Genome Browser, Human Genome, March 2006 (hg18) assembly Can search by Gene names, symbols, chromosome number or region, keywords, database ID's (NP, NM, OMIM, etc.) Examples: chr7 Displays all of chromosome 7 20p13 Displays region for band p13 on chr 20 chr3:1-1000000 Displays first million bases of chr 3, counting from p arm telomere chr3:1000000+2000 Displays a region of chr3 that spans 2000 bases, starting with position 1000000 D16S3046 Displays region around STS marker D16S3046 from th...
64 uses - Created 2007-08-14 19:36 - Last used 2010-04-15 17:58 - Nominate - Description - http://genome.ucsc.edu/cgi-bin/hgTracks?hgsid=96205306&clade=vertebrate&org=Human&db=hg18&position=%s&pix=620&hgsid=96205306&hgt.dummyEnterButton.x=0&hgt.dummyEnterButton.y=0

ihop
Searches the iHOP (Information Hyperlinked over Proteins) service, which uses gene networks to help navigate the biomedical literature.
57 uses - Created 2008-11-11 06:21 - Last used 2010-07-20 21:29 - Nominate - Description - http://www.ihop-net.org/UniPub/iHOP/?search=%s

pfam
query the Sanger center protein family database for a specific protein family. Protein families start with PF to find a protein just type protein family Example:pfam PF02574
28 uses - Created 2007-12-06 19:40 - Last used 2010-02-15 14:44 - Nominate - Description - http://pfam.sanger.ac.uk/family?acc=%s

protein
Protein OS The system from which we operate
19 uses - Created 2006-04-21 17:02 - Last used 2010-05-06 12:27 - Nominate - Description - http://www.proteinos.com

prosite
Searching PROSITE database. Intended to use for finding descriptions of functional protein motifs.
13 uses - Created 2008-10-01 13:55 - Last used 2010-05-20 08:58 - Nominate - Description - http://expasy.org/cgi-bin/prosite-search-ful?SEARCH=%s

ProteinBrands
Stick to brands you trust. The rest could be fooling you.
0 uses - Created 2009-02-12 19:20 - Last used 2009-02-12 19:20 - Nominate - Description - http://allmusclebuilding.com/beware-no-name-protein-brands-could-be-useless/