Protein Info for Shew_1543 in Shewanella loihica PV-4

Annotation: secretion protein HlyD family 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 50 100 150 200 250 300 352 transmembrane" amino acids 20 to 37 (18 residues), see Phobius details PF16576: HlyD_D23" amino acids 52 to 298 (247 residues), 65.1 bits, see alignment E=8.6e-22 PF13533: Biotin_lipoyl_2" amino acids 57 to 102 (46 residues), 48.7 bits, see alignment 7.7e-17 PF13437: HlyD_3" amino acids 222 to 301 (80 residues), 49.5 bits, see alignment E=9.4e-17

Best Hits

Swiss-Prot: 37% identical to EMRA_ACIBT: Colistin resistance protein EmrA (emrA) from Acinetobacter baumannii (strain ATCC 17978 / CIP 53.77 / LMG 1025 / NCDC KC755 / 5377)

KEGG orthology group: K03543, multidrug resistance protein A (inferred from 100% identity to slo:Shew_1543)

Predicted SEED Role

"Probable Co/Zn/Cd efflux system membrane fusion protein" in subsystem Cobalt-zinc-cadmium resistance

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 A3QD62 at UniProt or InterPro

Protein Sequence (352 amino acids)

>Shew_1543 secretion protein HlyD family protein (RefSeq) (Shewanella loihica PV-4)
MVVIMKQLLRKTQGNKIKKAIIISSMMLFASLFYYYQFPKAGLISTDNAYVQGEISQVSA
EVSGIINHVYITDNQYVEAGELLAQIDDRDYLAQYNQAKAGLTMAQAAIANIDERIKLQQ
ISIKQVSTQIDSTMADATFHRAEWHRLQNLLDKELISQSQFEAQTNKNNQAKAKLAASQL
QLSSAKQQLNTLRSDKARLNAQAEQANAALALAKLRLENTQVRAPVAGIIGNRALRAGRF
ASKGAPLLAIVPVESIWIEANYKETQITNILPGQLVDVMLDSFPEEHLKGRVLSIAPATG
AQFGLLPPDNATGNFVKIVQRVPIKIALEIPRALQGRIVPGLSAEVTIDTNH