PSORTb v3.0 (Gram-negative)

Running PSORTb v3.0 on SMc04396 (414 amino acids)

SeqID: SMc04396 
  Analysis Report:
    CMSVM-            Unknown                       [No details]
    CytoSVM-          Unknown                       [No details]
    ECSVM-            Unknown                       [No details]
    ModHMM-           Unknown                       [No 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-        Periplasmic                   [matched 15598386: probable binding protein component of ABC sugar transporter[Pseudomonas aeruginosa PAO1]]
    SCL-BLASTe-       Unknown                       [No matches against database]
    Signal-           Non-Cytoplasmic               [Signal peptide detected]
  Localization Scores:
    Periplasmic            9.76
    Extracellular          0.11
    CytoplasmicMembrane    0.06
    OuterMembrane          0.06
    Cytoplasmic            0.00
  Final Prediction:
    Periplasmic            9.76

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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

>SMc04396
MRKFMTTTAVAALMLAATAARAAENVEVLHWWTSGGEAAALDVLKKDLESKGISWTDMPV
AGGGGTEAMTVLRARVTAGNAPTAVQMLGFDILDWAKEGALGNLDEVAAKEGWDKVVPAA
LQQFSKYDGHWIAAPVNVHSTNWVWINKAALDKAGAKEPTTWEELIALLDKFKEQGITPI
AHGGQPWQDATIFDAVVLSLGNDFYKQAFIDLDPAALGGDKMKEAFDRMTKLRSYVDDNF
SGRDWNLASAMVIENKAGLQFMGDWAKGEFLKAKKVPGTDFVCMRFPGTQGSVTFNSDQF
AMFKVSEDKVPAQLQMASAIESPAFQSAFNVVKGSVPARTDVPDTDFDACGKKGIKDLAE
ANTNGTLFGSMAHGHANPAAVKNAIYDVVTRQFNGELNSEEAVTELVAAVEAAK

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory