PSORTb v3.0 (Gram-negative)

Running PSORTb v3.0 on RR42_RS03060 (566 amino acids)

SeqID: RR42_RS03060 
  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

>RR42_RS03060
MANAQNVAIPGGNAQNSAMTAEERKVIFASSLGTVFEWYDFYLYGSLAAIIAKQFFSGLD
PTAAFIFALLAFAAGFIVRPFGALVFGRLGDMIGRKYTFLVTILIMGASTFIVGLLPGFA
SIGWAAPIILIGLRMLQGLALGGEYGGAATYVAEHAPHGKRGAYTAWIQTTATLGLFLSL
IVILVCRNMTGANFEVWGWRIPFLVSILLLGVSVYIRLSMSESPAFQKMKAEGKTSKAPL
TEAFGQWRNLKIVILALIGLTAGQAVVWYTGQFYSLFFLTQVLKVDATTANLLIAGALVV
GTPFFIFFGSLSDKVGRKWIIMAGCALAMLTYFPLFKALTHYANPALERAQQSAQIVVTA
DPKQCSFQGSPIAREIDFRSSCDIVKRTLAQASASYEVVEAPAGTVASVKIGDKEIASFN
ASLVPAGHSFDDASKKQIAAFKKQVGESMASAGYPTKADPAQMNTIMVLVVLVILVIYVT
MVYGPIAAMLVEMFPTRIRYTSMSLPYHIGNGWFGGLLPTISFALVAQNGNIYYGLWYPI
IIAGVTLVLGSLFIRETKDVDIYAND

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory