PSORTb v3.0 (Gram-negative)

Running PSORTb v3.0 on GFF3740 (514 amino acids)

SeqID: GFF3740 
  Analysis Report:
    CMSVM-            CytoplasmicMembrane           [No details]
    CytoSVM-          Unknown                       [No details]
    ECSVM-            Unknown                       [No details]
    ModHMM-           CytoplasmicMembrane           [12 internal helices found]
    Motif-            Unknown                       [No motifs found]
    OMPMotif-         Unknown                       [No motifs found]
    OMSVM-            Unknown                       [No details]
    PPSVM-            Unknown                       [No details]
    Profile-          Unknown                       [No matches to profiles found]
    SCL-BLAST-        CytoplasmicMembrane           [matched 1709485: Glycine betaine transporter opuD]
    SCL-BLASTe-       Unknown                       [No matches against database]
    Signal-           Unknown                       [No signal peptide detected]
  Localization Scores:
    CytoplasmicMembrane    10.00
    Cytoplasmic            0.00
    Periplasmic            0.00
    Extracellular          0.00
    OuterMembrane          0.00
  Final Prediction:
    CytoplasmicMembrane    10.00

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Other sequence analysis tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search PFam (including for weak hits, up to E = 1)

Search structures

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in the ENIGMA genome browser

Input

>GFF3740
MSETSMETTPQESRINKPLFLLSGGFIALFCVAALVNLDGLSALVDWGFNIAATYFGLYW
QILLLATFLIGLVLCILPGGRAIMGGLATPEFTTFQWGSMIMCTLLAGGGVFWAAGEPIA
HFLYSPPLYGAEGGSEAAVTPAIAQSFMHWGFLAWAILGSLSTVMLMHYHYEKGLPLAPR
TLLYPVFGDKAINGPIGVIADASSIIAVVAGTVGPIGFLGLQVSYGLSDLFGIPDVFATQ
FVVIGALVALYTISAMTGLSRGIQLLSKINVILAAVLLIYVLLAGPTGFIFGSFFSGFAT
YLGNFFQMALYRGDAAVFGAPGWLGWWTVFFWGWFMGYGPLMAMFIARVSRGRSIRSIII
MLSIIAPIVTNFWFTIIGGTGIAMELAEPGTVSAAFEGFNLPAALLAITNNLPMGFLVSI
LFLILTTIFVATTGDSMSYVISATMTKGDTPSTAVRVFWGIAMGVMAVILISVGSGGVSK
LQSFIVVTAVPVSLILLPSLWDALRITLAKGKES

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory