Protein Info for Psyr_2864 in Pseudomonas syringae pv. syringae B728a

Annotation: RND efflux system, outer membrane lipoprotein, NodT

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 50 100 150 200 250 300 350 400 468 signal peptide" amino acids 1 to 21 (21 residues), see Phobius details TIGR01845: efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family" amino acids 9 to 465 (457 residues), 401 bits, see alignment E=3.5e-124 PF02321: OEP" amino acids 66 to 254 (189 residues), 86.6 bits, see alignment E=9.4e-29 amino acids 280 to 463 (184 residues), 102.4 bits, see alignment E=1.3e-33

Best Hits

Swiss-Prot: 49% identical to SRPC_PSEPU: Solvent efflux pump outer membrane protein SrpC (srpC) from Pseudomonas putida

KEGG orthology group: None (inferred from 100% identity to psb:Psyr_2864)

Predicted SEED Role

"RND efflux system, outer membrane lipoprotein CmeC" 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)

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

See Q4ZSH2 at UniProt or InterPro

Protein Sequence (468 amino acids)

>Psyr_2864 RND efflux system, outer membrane lipoprotein, NodT (Pseudomonas syringae pv. syringae B728a)
MRLFWPSLAVTALLAGCVNLAPDYQRPEAPVSSQWLPGTAGQPAASGSVPTDIEWQNFFI
DNRLVRLQTLALVNNRDLRLASLNVEKAQAQYRIERAASLPTIDASGSGTHTRTPSSTSM
TGKPSISHEYSAQLGLSSYELDVFGRIQNLQDEALEDYLALTETRRSTQISLIAEVATGW
LTLAADNQLLKLAEDTLASQQKSYDLTRSSHALGGSSGLEVAQAQTTVESARGDVAQYKS
QILQDRNALRLLVGSDLPEELLPNADTQSVAQLVQVPDGLPSSLLQRRPDVLSAEHTLKA
ANIDIGAARAAFFPSITLTASAGSSSTSLSGLFKSGTGAWSFAPSISVPIFDGGANRATL
DSAKVENQIQIQTYQQTIQTAFKEVADALAVRSTLDERLAAQQAYTDASRRSYELADALY
RGGSQSYLEALESQRSLYSAEQDLISLRLTEQSNRVTLYKVMGGGWNR