Protein Info for GFF3301 in Variovorax sp. SCN45

Annotation: Lignostilbene-alpha,beta-dioxygenase and related enzymes

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 50 100 150 200 250 300 350 400 450 475 PF03055: RPE65" amino acids 17 to 465 (449 residues), 428.5 bits, see alignment E=2.1e-132

Best Hits

KEGG orthology group: K11159, carotenoid cleavage dioxygenase (inferred from 79% identity to vpe:Varpa_0018)

Predicted SEED Role

"Lignostilbene-alpha,beta-dioxygenase and related enzymes" in subsystem Phenylpropanoid compound 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 (475 amino acids)

>GFF3301 Lignostilbene-alpha,beta-dioxygenase and related enzymes (Variovorax sp. SCN45)
MNDAIPRSAPPPNMDPIDFETELGPLPLKGTLPAGLRGTLVRNGPNPVVPDPKAHWFSGD
GMLHAFHLANGEVHYRNRWVRTQRWRAGAEGRDLSGGFQTAFSSEELEHLKDDGSANTNV
IGHAGRMLALEEAHLPVEMALPALDTLGATDFGGGLQGSFTAHPKTDPKTGELLFFGYGT
PAPLSNGMSFGVMSPEGRVTRFERFEAPYASMVHDFMVTDRHVMFPIMPLTASMERAQSG
RPPYAWEPEYGTRVGLMPRDGSTADIVWWKGPACYVFHVMNAWEAGGSLFADVVQFPTPP
LFPRPDGSPVGDKPPVSRLVRWQFDLSNPAHEFTQTPLEEIPGEFPRIDERVAGLPYRHG
WYVCRGVSQPGEPPRLYAGLVHIDHTTPHRDMYLFPAPDVVSEGVFVPRSADAEEGDGWL
LATVWRGATNTSDLVVFDARALAAGPVCVASLPHRVPVGFHGNWFGQQAERGATS