PSORTb v3.0 (Gram-negative)

Running PSORTb v3.0 on PP_1003 (475 amino acids)

SeqID: PP_1003 
  Analysis Report:
    CMSVM-            CytoplasmicMembrane           [No details]
    CytoSVM-          Unknown                       [No details]
    ECSVM-            Unknown                       [No details]
    ModHMM-           CytoplasmicMembrane           [13 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 114116: Cytoplasmic membrane integral membrane protein]
    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

>PP_1003
MSEPGQKLRLGALIALVVGSMIGGGIFSLPQNMAARADVGAVLIGWGITAVGMLALAFVF
QTLANRKPELDSGVYAYAKAGFGEYMGFSSAWGYWISAWLGNVGYFVLLFSTLGFYFPVF
GEGNTPIAIGCASLLLWSVHFLVLRGIKEAAFINQVTTVAKVVPLLIFVVIAAFAFRADI
FTRDIWGLSNPQFGSVLEQVRNMMLVTVFVFIGIEGASVYSGRAQRRSDVGKATVIGFLG
VLALLVLVNVLSLGIMTQPELAGLQNPSLASVLEHIVGPWGALLISLGLAVSLLGALLSW
ALLCAEILYATARDKTMPRFLAKENANHVPANALWLTNCMIQGFLLITLFSAGTYTSLIY
LASSMILVPYLWSAAYAVLLAMRAETYAGQPRLRRKDLLVALVALLYAVWLLYAGGLKYL
LLSALLYAPGVILFARAKHEQGQTLFTAWEKLIFAAVLVGAALAAYALYSGLLSL

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory