PSORTb v3.0 (Gram-negative)

Running PSORTb v3.0 on RR42_RS06400 (546 amino acids)

SeqID: RR42_RS06400 
  Analysis Report:
    CMSVM-            CytoplasmicMembrane           [No details]
    CytoSVM-          Unknown                       [No details]
    ECSVM-            Unknown                       [No details]
    ModHMM-           CytoplasmicMembrane           [14 internal helices found]
    Motif-            Unknown                       [No motifs found]
    OMPMotif-         Unknown                       [No motifs found]
    OMSVM-            Unknown                       [No details]
    PPSVM-            Unknown                       [No details]
    Profile-          CytoplasmicMembrane           [matched PS50283: NA_SOLUT_SYMP_3 Profile - Cytoplasmic Membrane ]
    SCL-BLAST-        CytoplasmicMembrane           [matched 418555: Cation/acetate symporter actP]
    SCL-BLASTe-       Unknown                       [No matches against database]
    Signal-           Non-Cytoplasmic               [Signal peptide detected]
  Localization Scores:
    CytoplasmicMembrane    10.00
    Periplasmic            0.00
    Extracellular          0.00
    OuterMembrane          0.00
    Cytoplasmic            0.00
  Final Prediction:
    CytoplasmicMembrane    10.00

-------------------------------------------------------------------------------

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 structures

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in the ENIGMA genome browser

Input

>RR42_RS06400
MKQANLCAIGAALLLTALPAFAAPGSVGQGMNVIAIAMFLMFVAATLVVTRWAARSNHSV
ADHYAAGGKITALQNGWAIAGDYMSAASLLGISALVFTSGYDGLIYSIGFLASWPIILFL
IAEPLRNLGRFTLADVVSYRLRQRPIRAFSASSSIVIVLLYLVSQMVGAGKLVELLFGFS
YTAAVVLVGVLMVVYVFFGGMLATTWIQIIKAVLLLAGAAFMAFMVMSRFGFSLNALFAQ
AIEAHGKHAAIMRPGGLVSDPVSAVSLGLALIFGTAGLPHILMRFFTVGDVKAARKSILY
ATGIVGIGYALIIIIGFGTIALVASDPAYHTPAGAVIGGVNMVAVHLAHAVGGNLFLGFI
CAVAFSTILAVVAGLTLAGSSAISHDLYAKVLRQGNATDKEEMRVSRMTTLVLGVLSILL
GILFEKQTIAFIVSLTFSIAASSNFPVLLLSIYWRGLTTRGAVVGGSLGLLSAVVLTVLS
PTVWVQVLGHARAIYPYEYPALFSMLVAFAGIYVFSVTDRSARGARERGAFNNQLVDCEL
GLVKPQ

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory