Protein Info for GFF4626 in Sphingobium sp. HT1-2

Annotation: RND efflux system, membrane fusion protein

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 50 100 150 200 250 300 350 377 signal peptide" amino acids 1 to 26 (26 residues), see Phobius details PF00529: CusB_dom_1" amino acids 35 to 356 (322 residues), 40.6 bits, see alignment E=3.9e-14 TIGR01730: efflux transporter, RND family, MFP subunit" amino acids 37 to 370 (334 residues), 268.5 bits, see alignment E=3.5e-84 PF16576: HlyD_D23" amino acids 62 to 288 (227 residues), 59.5 bits, see alignment E=5.8e-20 PF13437: HlyD_3" amino acids 173 to 285 (113 residues), 32.6 bits, see alignment E=2.3e-11

Best Hits

Swiss-Prot: 53% identical to MEXA_PSEAE: Multidrug resistance protein MexA (mexA) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

KEGG orthology group: K03585, membrane fusion protein (inferred from 81% identity to sjp:SJA_C2-03260)

MetaCyc: 48% identical to multidrug efflux pump membrane fusion lipoprotein AcrA (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-1551; TRANS-RXN-1552; TRANS-RXN-354; TRANS-RXN-355; TRANS-RXN-356; TRANS-RXN-357; TRANS-RXN-359; TRANS-RXN-360; TRANS-RXN0-592

Predicted SEED Role

"RND efflux system, membrane fusion protein CmeA" in subsystem Multidrug Resistance Efflux Pumps or Multidrug efflux pump in Campylobacter jejuni (CmeABC operon)

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

Find the best match in UniProt

Protein Sequence (377 amino acids)

>GFF4626 RND efflux system, membrane fusion protein (Sphingobium sp. HT1-2)
MPIFTELRSLRVAPIALCILITACGQEKAPKKGPVEVGVVTLAAQNVTVSSELPARTVST
MQSEVRPQITGVIQKRLFTEGSMVTAGQPLYQIDERLYRASRDEAQAALVSAQATAVAAQ
AKAQRYRGLGDTEAVSAQDRDDVIATARQAAAAVGQARASLDTANVNLTFTQVRAPISGR
IGRTLFTPGALVTASQTDPLTTIQQLDPIYVDVTQSSSQLLQLRRSLAAGKTLPASATIR
LKLDDGTEYPLEGRIEFAEPIVDVDSGTVTLRARFPNPDGMLLPGMFVRVVAPQSVVPGA
ILAPQQGIARDAKGNATALVVTKDNKVERRTVTAAQAIGDKWLITAGLKAGDRLIVEGTD
KVQPDDKVKPVAVAAKK