Protein Info for PP_4038 in Pseudomonas putida KT2440

Updated annotation (from data): Dihydropyrimidine dehydrogenase (NADP(+)) (EC 1.3.1.2)
Rationale: Specific phenotype: utilization of 3-aminobutyric acid, Uracil. The phenotype on 3-aminobutyrate is not explained
Original annotation: NADP-dependent dihydropyrimidine dehydrogenase subunit PreA

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 50 100 150 200 250 300 350 424 TIGR01037: dihydroorotate dehydrogenase family protein" amino acids 5 to 319 (315 residues), 164.3 bits, see alignment E=1.8e-52 PF01180: DHO_dh" amino acids 7 to 305 (299 residues), 101.4 bits, see alignment E=2.2e-32 PF01207: Dus" amino acids 122 to 197 (76 residues), 25.4 bits, see alignment E=3e-09 PF12837: Fer4_6" amino acids 337 to 362 (26 residues), 26.3 bits, see alignment (E = 2e-09) PF14697: Fer4_21" amino acids 338 to 400 (63 residues), 74.1 bits, see alignment E=3.2e-24 PF12838: Fer4_7" amino acids 344 to 395 (52 residues), 33.6 bits, see alignment 1.8e-11

Best Hits

KEGG orthology group: None (inferred from 100% identity to ppf:Pput_1800)

MetaCyc: 60% identical to (NADP)-dependent dihydropyrimidine dehydrogenase (Brevibacillus agri)
Dihydropyrimidine dehydrogenase (NADP(+)). [EC: 1.3.1.2]; 1.3.1.2 [EC: 1.3.1.2]

Predicted SEED Role

"Dihydropyrimidine dehydrogenase [NADP+] (EC 1.3.1.2)" in subsystem Pyrimidine utilization (EC 1.3.1.2)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

No predicted isozymes

Use Curated BLAST to search for 1.3.1.2

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search 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 Q88FQ0 at UniProt or InterPro

Protein Sequence (424 amino acids)

>PP_4038 Dihydropyrimidine dehydrogenase (NADP(+)) (EC 1.3.1.2) (Pseudomonas putida KT2440)
MADLSIVFAGIKAPNPFWLASAPPTDKAYNVVRAFEAGWGGVVWKTLGEDPAAVNVSSRY
SAHYGPNRQVQGINNIELITDRSLEINLREITQVKKDWPDRALIVSLMVPCIEESWKFIL
PLVEATGADGIELNFGCPHGMPERGMGAAVGQVPEYVEMVTRWCKTYCALPVIVKLTPNI
TDIRQSARAAHRGGADAVSLINTINSITSVDLDRMVAHPIVGDQSTHGGYCGSAVKPIAL
NMVAEIARDPETRGLPICGIGGIGNWRDAAEFMALGSGAVQVCTAAMLHGFRIVEDMQDG
LARWMDQHGHATVEAFRGQAVGHTTDWKYLDINYKSVAHIDQEACIGCGRCHIACEDTSH
QAIASTLKADGTHAYSVIEEECVGCNLCQITCPVENCIEMEAQDTGKPYLNWTQDPRNPY
REAS