Protein Info for PP_0178 in Pseudomonas putida KT2440

Annotation: putative efflux pump

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 50 100 150 200 250 291 transmembrane" amino acids 12 to 34 (23 residues), see Phobius details PF00529: CusB_dom_1" amino acids 35 to 272 (238 residues), 28.6 bits, see alignment E=2.2e-10 PF16576: HlyD_D23" amino acids 46 to 236 (191 residues), 40.9 bits, see alignment E=2.9e-14 PF13533: Biotin_lipoyl_2" amino acids 47 to 94 (48 residues), 62.1 bits, see alignment 6.5e-21 TIGR01730: efflux transporter, RND family, MFP subunit" amino acids 47 to 234 (188 residues), 114.1 bits, see alignment E=3.2e-37 PF13437: HlyD_3" amino acids 155 to 238 (84 residues), 44.4 bits, see alignment E=5e-15

Best Hits

Swiss-Prot: 40% identical to YDHJ_ECOLI: Uncharacterized protein YdhJ (ydhJ) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 99% identity to ppg:PputGB1_0203)

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)

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 Q88RF2 at UniProt or InterPro

Protein Sequence (291 amino acids)

>PP_0178 putative efflux pump (Pseudomonas putida KT2440)
MKKPLLTLGRVVLTLLVVTFAAVLVWQMVVYYMFAPWTRDGHIRADVIQIAPDVSGLIQK
VEVRDNQTVKRGDVLFTIDQDRFTLALRQAKATLGERQETLAQASREAQRNRKLGNLVAA
EQLEESQSREARARSAVSEAQVAVDTAQLNLDRSVVRSPVDGYLNDRAPRNHEFVTAGRP
VLSVVDSASYHVDGYFEETKLGGIHIGDAVDIRVMGDNTRLRGHVQSFAAGIEDRDRSSG
ANLLPNVNPAFSWVRLAQRIPVRIAFDEVPQDFRMIAGRTATVSIIEGQRP