PSORTb v3.0 (Gram-negative)

Running PSORTb v3.0 on RR42_RS34790 RR42_RS34790 ABC transporter permease (348 amino acids)

SeqID: RR42_RS34790 RR42_RS34790 ABC transporter permease
  Analysis Report:
    CMSVM-            CytoplasmicMembrane           [No details]
    CytoSVM-          Unknown                       [No details]
    ECSVM-            Unknown                       [No details]
    ModHMM-           CytoplasmicMembrane           [10 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 79076: 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 structures

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in the ENIGMA genome browser

Input

>RR42_RS34790 RR42_RS34790 ABC transporter permease
MTKTLQGKTGWALLLALAIAFPLVTPNSYYLTVMTLAFIYAIATLGLNLITGYTGQLNLA
HGGFMAIGAYTLGILTVDHQVPFWAAFVLSGVVCMMVGYFVGVVSLRLKGHYFSIFTLCI
GYIIYLLIEKWESLTHGTVGLIGIPVPASVGPLAFDNVQAQYYLVLFFLVAGTFLMHRIV
TSLLGRSFMAVRNSDALAEALGINLMRTKVLSFVLSVGYAGFAGALYAGQVRFLGPDIAR
TDLTFEMVMAMLVGGTGTLLGPLLGAVLVPWVTQTLQFLQDYRMLVFGPVLVLLIIFVPD
GIVGSWAKRQARRAAAARRGGTSRAHPAGTPVAGNPNANAANAGADHA

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory