Protein Info for PP_4311 in Pseudomonas putida KT2440

Annotation: putative D-amino acid dehydrogenase 2 small subunit

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 50 100 150 200 250 300 350 397 signal peptide" amino acids 1 to 21 (21 residues), see Phobius details transmembrane" amino acids 371 to 390 (20 residues), see Phobius details PF01266: DAO" amino acids 4 to 395 (392 residues), 202.3 bits, see alignment E=3.4e-63 PF13450: NAD_binding_8" amino acids 7 to 53 (47 residues), 29.2 bits, see alignment 1.9e-10

Best Hits

Swiss-Prot: 62% identical to DADA2_PSEAE: D-amino acid dehydrogenase 2 (dadA2) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

KEGG orthology group: K00285, D-amino-acid dehydrogenase [EC: 1.4.99.1] (inferred from 100% identity to ppu:PP_4311)

Predicted SEED Role

"D-amino acid dehydrogenase small subunit (EC 1.4.99.1)" in subsystem Pyruvate Alanine Serine Interconversions or Respiratory dehydrogenases 1 (EC 1.4.99.1)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.4.99.1

Use Curated BLAST to search for 1.4.99.1

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 Q88EY9 at UniProt or InterPro

Protein Sequence (397 amino acids)

>PP_4311 putative D-amino acid dehydrogenase 2 small subunit (Pseudomonas putida KT2440)
MKQRVTVIGGGVVGLATAYALVREGWSVDLIEARDSLASATSFANGGQLSYRYVAPLADA
GVPWQALGWLLRGESPLRLRLRMDPAQWRWLLAFTLACRRSVNRRNAGQLLELALCSQAV
LAQWREDHNLGDFGWRRNGKLVAFRSERAFAQGREQLTDPASQQVLAAAELRGLEPALDG
APFVGGVFTAGEEVGDCHVFCLRLEALLRASGQCRFLLGRPVTQLVQRQGQVVALQLGDQ
QLDVEQLVLCAGHRGPGLALPGVQIPVYPLKGYSLTAPISAGHLPPEVSLTDYERKIVYA
RLGQQLRVAAMVDIVGFDESVDMRRLQSMRRLALETLPRAADYGQAVEWAGMRPATPTGV
PIIGGTVYRNLWLNLGHGALGFTLACGSAQRLARMMR