Protein Info for PP_5269 in Pseudomonas putida KT2440
Annotation: alanine racemase, PLP-binding
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: 100% identical to DADX_PSEPK: Alanine racemase, catabolic (dadX) from Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)
KEGG orthology group: K01775, alanine racemase [EC: 5.1.1.1] (inferred from 100% identity to ppu:PP_5269)MetaCyc: 100% identical to alanine racemase (Pseudomonas putida)
Alanine racemase. [EC: 5.1.1.1, 5.1.1.10]
Predicted SEED Role
"Alanine racemase (EC 5.1.1.1)" in subsystem Alanine biosynthesis or Pyruvate Alanine Serine Interconversions (EC 5.1.1.1)
MetaCyc Pathways
- L-lysine degradation V (9/9 steps found)
- L-alanine degradation I (2/2 steps found)
- alanine racemization (1/1 steps found)
- serine racemization (1/1 steps found)
- anaerobic energy metabolism (invertebrates, cytosol) (5/7 steps found)
- staphylopine biosynthesis (1/3 steps found)
- vancomycin resistance II (1/3 steps found)
- superpathway of anaerobic energy metabolism (invertebrates) (10/17 steps found)
- L-arginine degradation XIV (oxidative Stickland reaction) (2/6 steps found)
- ansatrienin biosynthesis (1/9 steps found)
- superpathway of L-lysine degradation (23/43 steps found)
- cyclosporin A biosynthesis (2/15 steps found)
KEGG Metabolic Maps
- Alanine and aspartate metabolism
- Cysteine metabolism
- D-Alanine metabolism
- D-Arginine and D-ornithine metabolism
- D-Glutamine and D-glutamate metabolism
- Glycine, serine and threonine metabolism
Isozymes
Compare fitness of predicted isozymes for: 5.1.1.1
Use Curated BLAST to search for 5.1.1.1 or 5.1.1.10
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
See Q88CB2 at UniProt or InterPro
Protein Sequence (357 amino acids)
>PP_5269 alanine racemase, PLP-binding (Pseudomonas putida KT2440) MRPARALIDLQALRHNYRLARELTGAKALAVIKADAYGHGAVRCALALEAEADGFAVACI EEALELRAAGIKAPVLLLEGFFEASELALIAEHDLWCVVHSLWQLEAIEKTPLHKPLNVW LKLDSGMHRVGLHPKDYHDAYQRLLASGKVSRIVLMTHFARADELDADATSQQIAVFEAA RQGLAAECSLRNSPGVLGWPQAPSDWVRPGLMLYGATPFEVAQAEAARLQPVMTLQSRVI SVRELPAGEPVGYGAKFVSPRPTRVGVVAMGYADGYPRQAPNGTPVLVAGKRTQLIGRVS MDMLSIDLTDVPQATVGSPVEFWGKQVLASEVAAHAGTIPYQIFCNLKRVPRDYIGE