Protein Info for Shew_0178 in Shewanella loihica PV-4

Name: secY
Annotation: preprotein translocase subunit SecY (RefSeq)

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 150 200 250 300 350 400 446 transmembrane" amino acids 21 to 41 (21 residues), see Phobius details amino acids 75 to 98 (24 residues), see Phobius details amino acids 121 to 139 (19 residues), see Phobius details amino acids 151 to 171 (21 residues), see Phobius details amino acids 181 to 200 (20 residues), see Phobius details amino acids 212 to 233 (22 residues), see Phobius details amino acids 270 to 292 (23 residues), see Phobius details amino acids 312 to 334 (23 residues), see Phobius details amino acids 370 to 390 (21 residues), see Phobius details amino acids 396 to 415 (20 residues), see Phobius details TIGR00967: preprotein translocase, SecY subunit" amino acids 19 to 426 (408 residues), 451 bits, see alignment E=2e-139 PF00344: SecY" amino acids 75 to 414 (340 residues), 403.1 bits, see alignment E=4.6e-125

Best Hits

Swiss-Prot: 85% identical to SECY_VIBCH: Protein translocase subunit SecY (secY) from Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

KEGG orthology group: K03076, preprotein translocase subunit SecY (inferred from 100% identity to slo:Shew_0178)

MetaCyc: 83% identical to Sec translocon subunit SecY (Escherichia coli K-12 substr. MG1655)

Predicted SEED Role

"Preprotein translocase secY subunit (TC 3.A.5.1.1)" (TC 3.A.5.1.1)

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Compare to protein structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See A3Q9A2 at UniProt or InterPro

Protein Sequence (446 amino acids)

>Shew_0178 preprotein translocase subunit SecY (RefSeq) (Shewanella loihica PV-4)
MAKPGLDLKSAKGGLSELKARLLFVIGAIIVFRAGSFVPIPGIDAAVLAELFNQQKGTIL
GMFNMFSGGALERASIFALGIMPYISASIIMQLLTVVHPALAELKKEGESGRKKISQYTR
YGTLVLGTFQAIGIATGLPNLVPGLVVNLGFGFYFVAVVSLVTGTMFLMWLGEQITERGI
GNGISILIFAGIVAGLPSAIGQTAEQARQGDLNVLVLLLIAVIVFAVTYFVVFVERGQRR
IVVNYAKRQQGRKVFAAQSTHLPLKVNMAGVIPPIFASSIILFPGTLAQWFGQNEGLSWL
SDFSLAVSPGQPLYSLLYATAIIFFCFFYTALVFNPRETADNLKKSGAFIPGIRPGEQTS
RYIDKVMTRLTLAGALYITFICLIPEFMLIAWKVQFYFGGTSLLIMVVVIMDFMAQVQTH
MMSHQYESVMKKANLVNKANLDRFGR