Protein Info for GFF5708 in Variovorax sp. SCN45

Annotation: Pyridoxal phosphate-dependent aminotransferase

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

Best Hits

Swiss-Prot: 74% identical to DGDA_BURCE: 2,2-dialkylglycine decarboxylase (dgdA) from Burkholderia cepacia

KEGG orthology group: K00596, 2,2-dialkylglycine decarboxylase (pyruvate) [EC: 4.1.1.64] (inferred from 92% identity to vpe:Varpa_4653)

Predicted SEED Role

"Siderophore biosynthesis diaminobutyrate--2-oxoglutarate aminotransferase (EC 2.6.1.76)" (EC 2.6.1.76)

MetaCyc Pathways

ectoine biosynthesis (3/5 steps found)
norspermidine biosynthesis (3/6 steps found)
ectoine degradation (1/4 steps found)
superpathway of polyamine biosynthesis III (3/8 steps found)
pyoverdine I biosynthesis (4/11 steps found)
rhizobactin 1021 biosynthesis (1/7 steps found)
baumannoferrin biosynthesis (1/11 steps found)

KEGG Metabolic Maps

Glycine, serine and threonine metabolism

Isozymes

No predicted isozymes

Use Curated BLAST to search for 2.6.1.76 or 4.1.1.64

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 (444 amino acids)

>GFF5708 Pyridoxal phosphate-dependent aminotransferase (Variovorax sp. SCN45)
MGSIDNMSRNDEPRFWEHARRHLVRYGGSFEPLIIERAQGSFVYDADGRAILDFTSGQMS
ALLGHSHPDIVAVVSQHVRTLDHLFSGMLSRPVVALAAEIARHAPGELERCLLLSTGAES
NEAALRMAKLVTGRHEVVAFTQSWHGMTGSAAAATYSAGRKGYGPAAAGSLAIPAPNAYR
PRFTTQQGELDWRRELDDGFEQVDRQSTGALAAFIAEPILSSGGILELPPGYMAALKQKC
SERGMLLIVDEAQTGVGRTGLMFACERDGVAPDILTLSKTLGAGLPLAAMVTTAAIEEEA
HARGFLFYTTHVSDPLPAAVGLKVLEVVERDGLVERARTAGERLVQGLQRLQSRHECIGD
VRGRGLLLGLELVTDRRTREPAAKLGEAITRECMKLGLSMNIVKLPSMGGVFRIAPPLTI
SDSEIDLGLELLDKAIDTAVRNGR