ExPASy_SIB
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This web interface to PFSEARCH is meant to be used in conjunction with the
MSA hub
. To make a proficient use of this service, new users are warmly encouraged to read the
relative help page about PSI-BLAST
.
Sequence Input
multiple sequence alignment (MSA)
examples
multiple FASTA format
identifier
Mandatory parameters
seq_source
sw
- Swiss-Prot
bact
- Some complete proteomes from Bacteria
arch
- Some complete proteomes from Archaea
euk
- Some complete proteomes from Eukaryota
ur50
- UniRef50
ur50_win20
- UniRef50 window shuffled (w=20)
ecoli
- Escherichia coli K12 proteome
Show optional parameters
Optional parameters
Taxonomic restriction
(
NCBI taxonomic browser
)
- no restriction [all]-
Archaea [taxid:2157]
Bacteria (eubacteria) [taxid:2]
Eukaryota (eucaryotes) [taxid:2759]
Fungi [taxid:4751]
Stramenopiles [taxid:33634]
Metazoa [taxid:33208]
Arthropoda [taxid:6656]
Viridiplantae [taxid:33090]
Viruses [taxid:10239]
Homo_sapiens (human) [taxid:9606]
Mus_musculus (house mouse) [taxid:10090]
Xenopus (genus) [taxid:8353]
Caenorhabditis elegans [taxid:6239]
Drosophila_melanogaster (fruit fly) [taxid:7227]
Arabidopsis_thaliana (thale cress) [taxid:3702]
Saccharomyces cerevisiae [taxid:4932]
Schizosaccharomyces pombe [taxid:4896]
Search method
local on query
global on query
Cutoff (normalized score) inclusion threshold
12.0 (e-value=0.000021)
10.0 (e-value=0.0021)
9.0 (e-value=0.021)
8.5 (e-value=0.067)
8.0 (e-value=0.21)
7.5 (e-value=0.67)
7.0 (e-value=2.1)
6.5 (e-value=6.7)
Cutoff (normalized score) report threshold
12.0 (e-value=0.000021)
10.0 (e-value=0.0021)
9.0 (e-value=0.021)
8.5 (e-value=0.067)
8.0 (e-value=0.21)
7.5 (e-value=0.67)
7.0 (e-value=2.1)
6.5 (e-value=6.7)
6.0 (e-value=21)
5.5 (e-value=67)
Cluster matches at approx. identity level
100 % (all)
90 %
80 %
70 %
60 %
50 %
This service is very computer intensive, please be patient.