Protein Info for LRK54_RS16120 in Rhodanobacter denitrificans FW104-10B01

Annotation: efflux RND transporter periplasmic adaptor subunit

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 50 100 150 200 250 300 350 402 transmembrane" amino acids 30 to 51 (22 residues), see Phobius details PF16576: HlyD_D23" amino acids 66 to 295 (230 residues), 56.9 bits, see alignment E=4.5e-19 PF13533: Biotin_lipoyl_2" amino acids 67 to 115 (49 residues), 36.7 bits, see alignment 7.2e-13 PF00529: CusB_dom_1" amino acids 185 to 352 (168 residues), 52.1 bits, see alignment E=1.3e-17 PF13437: HlyD_3" amino acids 224 to 335 (112 residues), 54.8 bits, see alignment E=3.4e-18

Best Hits

Swiss-Prot: 47% identical to EMRA_ECOLI: Multidrug export protein EmrA (emrA) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 51% identity to bxe:Bxe_A3583)

MetaCyc: 47% identical to multidrug efflux pump membrane fusion protein EmrA (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-363; TRANS-RXN-364; TRANS-RXN-365

Predicted SEED Role

"Membrane fusion component of tripartite multidrug resistance system" in subsystem Multidrug Resistance, Tripartite Systems Found in Gram Negative Bacteria

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

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

Search 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 (402 amino acids)

>LRK54_RS16120 efflux RND transporter periplasmic adaptor subunit (Rhodanobacter denitrificans FW104-10B01)
MSATESAKTSADANDSGMAAKDPAKRRRTLLIVASVFILAALLWFLLWFFVLSTRVKTDN
AYVGGNQVAISAQVPGTVVAILADDTQHVEAGQVLVKLDSTDADTRLAQARSALAQAVRG
VRQQTSSATSADAQVVAAKLDLKKAEADLKRRLPLIAAQAESPEIVQHLRDGVEQARAAV
NAAEAQAAAAHAAIEGTDVAQNPVVLQARANFRAAWVAAQRNAIYAPVSGYVAERSVQLG
NSVQPGQQLMTVVPLHDLWIDANFKESQLRHIRIGQPAKIVSDLYGSDAVYHGKVVGLGA
GTGSVFSLLPAQNATGNWIKVVQRVPVRIALDNQELDRHPLRIGLSTDVTVDIRHDQGSV
LANAPTQQPVAQTGVYDQMASQADAEADRIIRANLSHATAAN