Protein Info for Shew_3439 in Shewanella loihica PV-4

Annotation: type II secretion system protein (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 50 100 150 200 250 300 350 422 transmembrane" amino acids 88 to 107 (20 residues), see Phobius details amino acids 186 to 208 (23 residues), see Phobius details amino acids 237 to 254 (18 residues), see Phobius details amino acids 394 to 414 (21 residues), see Phobius details PF00482: T2SSF" amino acids 87 to 209 (123 residues), 116.6 bits, see alignment E=3.5e-38 amino acids 290 to 412 (123 residues), 107.8 bits, see alignment E=1.9e-35

Best Hits

Swiss-Prot: 60% identical to TAPC_AERHY: Type IV pilus assembly protein TapC (tapC) from Aeromonas hydrophila

KEGG orthology group: K02653, type IV pilus assembly protein PilC (inferred from 100% identity to slo:Shew_3439)

Predicted SEED Role

"Type IV fimbrial assembly protein PilC" in subsystem Type IV pilus

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 A3QIK7 at UniProt or InterPro

Protein Sequence (422 amino acids)

>Shew_3439 type II secretion system protein (RefSeq) (Shewanella loihica PV-4)
MATASLAKTSTKKQKAAKAQPKVVTFEWKGTNRDGKKTSGELRGTSPAEIKAQLKSQGVN
PKVVKKKAEPLFKSDPKIKAMDIAMITRQIATMLAAGVPIVTTLEMLGRGHEKPRMRELL
GTIVADVQSGIPLSDSLKPHRQYFDDLYVDLVGAGEHSGSLDAVFDRIATYREKAEALKS
KIKKAMFYPAAVIVVAIAVTTLLLLFVVPQFEDIFAGFGAELPAFTQMIVSISRWLQSSW
YFFVIGIVVSIWSFKKAHLKSAGFRNKVDELVLKIPIIGEILHKAAMARFARTLATTFAA
GVPLIDGLESAAGASGNYVYRSALTKVRTEVMSGMQMNVAMRTTGLFPDMLIQMVMIGEE
SGGLDDMLNKIANIYEMQVDDAVDGLSSLIEPMMMVVIGTLVGGLIIGMYLPIFQMGNVV
GG