PSORTb v3.0 (Gram-negative)

Running PSORTb v3.0 on CCNA_01031 (550 amino acids)

SeqID: CCNA_01031 
  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-          CytoplasmicMembrane           [matched PS50850: MFS Profile - Cytoplasmic Membrane ]
    SCL-BLAST-        CytoplasmicMembrane           [matched 17865747: 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

>CCNA_01031
MGAKGQAAPAKGRDTMVVGASSLGTVFEWYDFYLYGSLAPIITSHFFSGVNETTGFILAL
LAFAAGFAIRPLGALIFGRLGDLWGRKNTFLITMLLMGVSTFVVGLLPSYAQIGVAAPIA
LVLMRLVQGLALGGEYGGAATYVAEHAPPGKRGFYTSWIQTTATIGLFLSLAVILVARIQ
LGEEAFKAWGWRIPFLVSLLLLGVSLWIRLKLHESPTFERMIAEGKGSKKPLTEAFGNWP
NLKIVLLALVGLTMGQAVVWYTGQFYALFFLEKTLKLDGALANTLVAVALLIGTPFFVIC
GWLSDKIGRKPIIILGCLLAALTYFPIFKAITTYANPALAKAEATAPVVVTADTATCAFQ
FDLIGKAKFNTPCDVAKAYLAKAGVSYSVQAAPAGTPTAVKVGDVTLEGLDSKGATGQAF
ADARKAWEADLGAQLKAAGYPAKADAALVNKPAVIGLLALLVIYVTMVYGPIAAMLVELF
PTRIRYTAMSLPYHIGNGWFGGFLPTTAFAIVAATGDIYSGLWYPVIIAAITAVVGGLFL
KDTRHNRLED

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory