Protein Info for GFF3552 in Xanthobacter sp. DMC5

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 50 100 150 200 250 300 350 381 signal peptide" amino acids 1 to 30 (30 residues), see Phobius details transmembrane" amino acids 39 to 58 (20 residues), see Phobius details amino acids 65 to 83 (19 residues), see Phobius details amino acids 89 to 106 (18 residues), see Phobius details amino acids 115 to 133 (19 residues), see Phobius details amino acids 139 to 156 (18 residues), see Phobius details amino acids 164 to 184 (21 residues), see Phobius details amino acids 203 to 228 (26 residues), see Phobius details amino acids 249 to 249 (1 residues), see Phobius details amino acids 287 to 308 (22 residues), see Phobius details amino acids 313 to 335 (23 residues), see Phobius details amino acids 343 to 375 (33 residues), see Phobius details PF03594: BenE" amino acids 2 to 373 (372 residues), 341.2 bits, see alignment E=3.7e-106 TIGR00843: benzoate transporter" amino acids 2 to 372 (371 residues), 279.7 bits, see alignment E=1.9e-87

Best Hits

KEGG orthology group: K05782, benzoate membrane transport protein (inferred from 77% identity to xau:Xaut_1440)

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 (381 amino acids)

>GFF3552 Inner membrane protein YdcO (Xanthobacter sp. DMC5)
VPVSAIVSAFVAALVGFGGTLALILSAAAAVGASPAQASSWVAALCLAVAGSSAFLSIRH
RLPIITAWSTPGAALLAAFGAGIGMERAAGAFLVAGLLMVACAAVKPLGTLVARIPVAVA
AAMLAGVLVRFVTALAEHAVKSPALVLPVVAAFFLTRRLAPSWSVPAALVAGIAAALGLG
AVGPMPAPELSALVWVTPEFDSGVLISIALPLFLVTMASQNLPGFAVLTASGYVPPVRSI
LATTGIASVLTAPFGAHASNLAAITAALCTGPDCDPDPRARWKAGPVYALFYLLLAAAGA
SLVAVFAALPPALVATIAGLALIAPLTGSLTAALNVDKDRTAAIVTFATTASGISALGLG
APVWGLAAGLAVFAMDTVRRR