Protein Info for Sama_1000 in Shewanella amazonensis SB2B

Annotation: multidrug resistance efflux pump (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 50 100 150 200 250 300 354 transmembrane" amino acids 12 to 29 (18 residues), see Phobius details PF16576: HlyD_D23" amino acids 45 to 274 (230 residues), 62 bits, see alignment E=7.9e-21 PF13533: Biotin_lipoyl_2" amino acids 46 to 92 (47 residues), 41 bits, see alignment 1.9e-14 PF13437: HlyD_3" amino acids 201 to 276 (76 residues), 39.9 bits, see alignment E=9.1e-14

Best Hits

KEGG orthology group: K03543, multidrug resistance protein A (inferred from 100% identity to saz:Sama_1000)

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 A1S4A1 at UniProt or InterPro

Protein Sequence (354 amino acids)

>Sama_1000 multidrug resistance efflux pump (RefSeq) (Shewanella amazonensis SB2B)
MPQSANTSKKISTYLFVTVLGIWLYSLWADRVTPMTTQAFVHAYLVRITPEVAGNIVQVN
VDNDKRVEAGELLFEIDATQYQIAREKAQADLERVGQSLGASTAAVQVAQAKVGDARAAL
DNAKAQATRVETLAERGVLSQAELDNAREAAQRAQASLEAAQASLLQAKQNLGPVGENNP
ELKAAMAALAKAELDLKRTRVVAPSRGVVTNVQLSPGQYMAPGQPALTFIDPREVWISAM
MRENSLEHIREGGKVGLVFDALPGRVFEGVVDSIGWGSGGANNIDQTTGFETAQTGKQQA
KRFPVHIRFDTAPMANELRFGSQVTVAFYTGESSVGETLAQLWLWCWSKLTYVS