Protein Info for GFF2877 in Pseudomonas sp. DMC3

Annotation: Efflux pump periplasmic linker BepF

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 50 100 150 200 250 300 350 417 signal peptide" amino acids 1 to 25 (25 residues), see Phobius details TIGR01730: efflux transporter, RND family, MFP subunit" amino acids 38 to 368 (331 residues), 265.1 bits, see alignment E=3.7e-83 PF16576: HlyD_D23" amino acids 62 to 287 (226 residues), 55.1 bits, see alignment E=1e-18 PF13533: Biotin_lipoyl_2" amino acids 62 to 110 (49 residues), 46.1 bits, see alignment 4.9e-16

Best Hits

Swiss-Prot: 32% identical to BEPF_BRUSU: Efflux pump periplasmic linker BepF (bepF) from Brucella suis biovar 1 (strain 1330)

KEGG orthology group: None (inferred from 95% identity to pfo:Pfl01_2659)

MetaCyc: 32% identical to multidrug efflux pump membrane fusion protein MdtE (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-352; TRANS-RXN-359; TRANS-RXN-367

Predicted SEED Role

"Multidrug efflux membrane fusion protein MexE"

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 (417 amino acids)

>GFF2877 Efflux pump periplasmic linker BepF (Pseudomonas sp. DMC3)
MEQSLKHLRFPLAMLAVLVMSACGKTPETAGAPPAAKVSVAKVLEQPVNEWDEFTGRLEA
PETVEIRPRVSGQIDQVAFTEGALVKKGDLLFQIDPRPFQAEVRRLEALVAQARATATRS
ENEAARGERLRASNAISAELADSRTSAAQEARAAVGALQAQLDLAKLNLSFTRVTAPISG
RVSRAEITAGNLVTADTTALTSVVSTDKVYAYFDADERVFLKYTQLARNGQRGATTPVYM
GLSNEDGNPHLGQMNFVDNQVNPKTGTIRGRAVFDNADGTYTPGLYARLKLVGSGTYNAM
LINDEAVGTDLGKKFVLVMDGDNKTAYRAVELGPKIEGLRIVRNGLNKDDTIIVKGLQRV
RPGSPVTPEVIPMASEQTLAALAQQRQALEASNLPKVAPAKGASGSAAKLAATTPRG