PSORTb v3.0 (Gram-negative)

Running PSORTb v3.0 on 200392 SO1214 NupC family protein (NCBI ptt file) (432 amino acids)

SeqID: 200392 SO1214 NupC family protein (NCBI ptt file)
  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 465598: Inner membrane transport protein yeiJ]
    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

>200392 SO1214 NupC family protein (NCBI ptt file)
MNILMSLVGVVVLLAIGFLLSNNKKAINLRTVGGALAIQAAFGGFVLYVPVGKDILKGMS
DAVSSVIGFAQNGIGFLFGDLANFKLGFIFAVNVLPVIVFFSSLIAVLYYLGVMQWIIRI
IGGGLQKALGTSRTESMSATANIFVGQTEAPLVVRPFIPTMTQSELFAVMVGGLASIAGS
VLAGYAQMGVPIEFLVAASFMAAPGGLLMAKLMHPETEVAKNDMDELPEDPDKPANVLDA
AAAGASSGMHLALNVGAMLLAFVGLIAMINGIIGGVGGWFGVEGLTLELILGYVFMPLAF
LIGVPWNEALVAGSFIGQKIIVNEFVAYLNFAPYISEAATACTSVAAEVVKGSLPLCVAE
TQAVMTSRTQAIVSFALCGFANLSSIAILLGGLGAMAPNRRHDLAKMGIRAVIAGSLANL
MSATIAGLFLAI

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory