Protein Info for GFF691 in Pseudomonas sp. DMC3

Annotation: Inner membrane protein YdcO

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 50 100 150 200 250 300 350 409 transmembrane" amino acids 31 to 53 (23 residues), see Phobius details amino acids 66 to 85 (20 residues), see Phobius details amino acids 92 to 110 (19 residues), see Phobius details amino acids 116 to 135 (20 residues), see Phobius details amino acids 142 to 160 (19 residues), see Phobius details amino acids 166 to 183 (18 residues), see Phobius details amino acids 190 to 209 (20 residues), see Phobius details amino acids 228 to 247 (20 residues), see Phobius details amino acids 312 to 335 (24 residues), see Phobius details amino acids 341 to 362 (22 residues), see Phobius details amino acids 373 to 404 (32 residues), see Phobius details TIGR00843: benzoate transporter" amino acids 25 to 404 (380 residues), 432.9 bits, see alignment E=5.7e-134 PF03594: BenE" amino acids 27 to 402 (376 residues), 523.4 bits, see alignment E=1.6e-161

Best Hits

Swiss-Prot: 43% identical to BENE_ACIAD: Benzoate membrane transport protein (benE) from Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)

KEGG orthology group: K05782, benzoate membrane transport protein (inferred from 97% identity to pfo:Pfl01_1792)

Predicted SEED Role

"Benzoate transport protein" in subsystem Benzoate degradation

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 (409 amino acids)

>GFF691 Inner membrane protein YdcO (Pseudomonas sp. DMC3)
VADIFIGIRNTAVMTDATHARLRPLADTSPSAIVAGFIAMMTGYTSSLVLMFQAGQAAGL
TSGQISSWIWAISIGMAVCSIGLSLRYRTPITIAWSTPGAALLITSLGGVSYGEAIGAYI
TCAVLVTICGLTGSFERLVKKIPASLAAALLAGILFKIGSEIFVAAQHRTGLVLGMFFTY
LLVKRLSPRYAVLAALLIGTALSGFMGLLDFSGFHLEVATPVWTTPHFSLAATISIGIPL
FVVAMTSQNMPGIAVLRADGYKVPASPLITTTGIASLLLAPFGSHGINLAAISAAICTGP
HAHEDRNKRYTAAVWCGVFYGIAGVFGATLAALFAALPKELVLSIAALALFGSIINGLSI
AMSEVKEREAALITFMVTASGLTLFSIGSAFWGIVAGVLTLVILNWRRA