PSORTb v3.0 (Gram-negative)

Running PSORTb v3.0 on CCNA_01017 (530 amino acids)

SeqID: CCNA_01017 
  Analysis Report:
    CMSVM-            Unknown                       [No details]
    CytoSVM-          Cytoplasmic                   [No details]
    ECSVM-            Unknown                       [No details]
    ModHMM-           Unknown                       [No 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-        Cytoplasmic                   [matched 416605: Cytoplasmic protein]
    SCL-BLASTe-       Unknown                       [No matches against database]
    Signal-           Unknown                       [No signal peptide detected]
  Localization Scores:
    Cytoplasmic            9.97
    Periplasmic            0.01
    CytoplasmicMembrane    0.01
    Extracellular          0.00
    OuterMembrane          0.00
  Final Prediction:
    Cytoplasmic            9.97

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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_01017
MSDAIDFDRMNTLGDVPRYHAEARPDAVAFSFEGRETTFAQLDRHTNQVANALLAAGLST
GDRIAYVGKNSDHYFELLLGAAKAGVVTTPIGWRLAAPEIAYIVGDSEAKLVFVGRELIG
HVDAVAAELTHRPVVIAMEAEGAGDYQTFEGWRDAASDVDPHKPIQISDIAIQLYTSGTT
GRPKGAMLTHHNLLGMRREAAKNPLEWNQWGPSDVSLVAMPVAHIGGTGWGLVGLINGAK
GVVAREFDPTKVLDFIEKDRISKMFMVPAALQIVVRLPRAREVDYSRLTHILYGAAPIPL
DLLRECMEVFGCGFVQQYGMTETTGTVVYLPPEDHDPAGNKRMRAAGLPMPGVELKIIDE
AGKSLPPNTVGEVAVRSSANMAGYWKLDEATAKTMDADGWLRTGDAGYLDEDGYLFIHDR
VKDMIISGGENIYPAEVESAVYGHPHVAEVAVIGVPDDKWGEAVKAVVAPKPGVTPDADD
IIAFARTRIAHFKAPKSVDFIPALPRNASGKILRRELRAPYWEGRERQVN

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory