Protein Info for GFF1613 in Sphingobium sp. HT1-2
Annotation: Pyridoxine 4-dehydrogenase PhxI (EC 1.1.1.65)
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: 69% identical to PDXI_ECOLI: Pyridoxine 4-dehydrogenase (pdxI) from Escherichia coli (strain K12)
KEGG orthology group: K00100, [EC: 1.1.1.-] (inferred from 71% identity to gox:GOX2371)MetaCyc: 69% identical to pyridoxal reductase (Escherichia coli K-12 substr. MG1655)
Pyridoxine 4-dehydrogenase. [EC: 1.1.1.65]; RXN0-7143 [EC: 1.1.1.65]
Predicted SEED Role
"Aldo-keto reductase"
MetaCyc Pathways
- pyridoxal 5'-phosphate salvage II (plants) (6/9 steps found)
- superpathway of pyridoxal 5'-phosphate biosynthesis and salvage (8/12 steps found)
- pyridoxal 5'-phosphate salvage I (3/6 steps found)
- 4-amino-2-methyl-5-diphosphomethylpyrimidine biosynthesis II (3/8 steps found)
KEGG Metabolic Maps
- Alkaloid biosynthesis I
- Aminosugars metabolism
- Ascorbate and aldarate metabolism
- Benzoate degradation via CoA ligation
- Biosynthesis of alkaloids derived from shikimate pathway
- Biosynthesis of type II polyketide products
- Biosynthesis of unsaturated fatty acids
- Bisphenol A degradation
- Butanoate metabolism
- C21-Steroid hormone metabolism
- Fructose and mannose metabolism
- Glycine, serine and threonine metabolism
- Insect hormone biosynthesis
- Linoleic acid metabolism
- Nucleotide sugars metabolism
- Polyketide sugar unit biosynthesis
- Retinol metabolism
- Tetrachloroethene degradation
- Vitamin B6 metabolism
Isozymes
Compare fitness of predicted isozymes for: 1.1.1.-
Use Curated BLAST to search for 1.1.1.- or 1.1.1.65
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 (292 amino acids)
>GFF1613 Pyridoxine 4-dehydrogenase PhxI (EC 1.1.1.65) (Sphingobium sp. HT1-2) MMDLRKAGTFMLGDHLVNRMGYGAMQLAGPGVFGPPKDRDAAVAVLRAAVAAGVNHIDTS DFYGPHVTNQIIRDALHPYSDDLLIVTKVGAIRGKDASWLPAQSATELQQGVEDNLRNLG RDTLDLVNMRIMGDIHAPSEGSIEAQIVALAQLREKGLVRHIGLSNVTESEVAEAQRIVP IACVQNQYNLAHRADDALIDSLTSQGIAYVPFFPLGGFSPIQSQALAHLADRLGATSMQL ALAWLLARAPNMLLIPGTSNVAHLTENLAAVELDLSQEVKAALEAIAFDPAH