Protein Info for PP_3622 in Pseudomonas putida KT2440

Updated annotation (from data): vanillin dehydrogenase, iorB-like component
Rationale: Specifically important in carbon source Vanillin. This gene cluster is probably the major vanillin dehydrogenase in P. putida. This system is expected to use a molybdopterin cofactor, which explains why molybdate uptake is required for growth on vanillin (PMID:24136472).
Original annotation: putative Isoquinoline 1-oxidoreductase, beta 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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 751 signal peptide" amino acids 1 to 48 (48 residues), see Phobius details PF20256: MoCoBD_2" amino acids 46 to 203 (158 residues), 48.5 bits, see alignment E=9.3e-17 amino acids 615 to 693 (79 residues), 54.8 bits, see alignment E=1.1e-18 PF02738: MoCoBD_1" amino acids 342 to 573 (232 residues), 117.1 bits, see alignment E=7.1e-38

Best Hits

KEGG orthology group: K07303, isoquinoline 1-oxidoreductase, beta subunit [EC: 1.3.99.16] (inferred from 100% identity to ppu:PP_3622)

MetaCyc: 85% identical to 2-deoxy-D-ribose dehydrogenase beta subunit (Pseudomonas simiae)
1.1.2.M2 [EC: 1.1.2.M2]

Predicted SEED Role

"Isoquinoline 1-oxidoreductase beta subunit (EC 1.3.99.16)" in subsystem N-heterocyclic aromatic compound degradation (EC 1.3.99.16)

MetaCyc Pathways

Isozymes

Compare fitness of predicted isozymes for: 1.3.99.16

Use Curated BLAST to search for 1.1.2.M2 or 1.3.99.16

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 Q88GU5 at UniProt or InterPro

Protein Sequence (751 amino acids)

>PP_3622 vanillin dehydrogenase, iorB-like component (Pseudomonas putida KT2440)
MNTPVDTPAELLRLQRGETVNLSRRRFLAGTAVGALVLGFGLPMGSARVQAAAAAAATAE
RGTQVPAFLEIRPDGTVRLLSPFMEGGQGPFTAMAQIVGEELDVDPAHFVVDSAPPGEAY
VVMENGMRITGGSMSVRMSYPTMRRLGALARGMLLQAGAEHLGVPVDELSTTPGNVVHTT
TGRSVPYGELAGRAMDLPVPDPASVKLRDPSQFRWIGKPVRRLDAYDKSTGKAQYCIDIK
VDGMLHAAVQHAPRLGMTVGSLRNEDQIKAMKGVHSVHQLPGAVAVVAERWWHAKRAVEA
IQVDWKEPAADSKVRPMPADFSSDAWREHLATVQGPSRDEENEGDIAGALANAKTKVEAS
YHNQYLNHAQLEPPSALARFNPDGSLDVWLPNQAPDMFRDDIARRTGLEPAQINLHSPLL
GGFFGRHFLYDSANPYPQAIALAKAVGRPVKLIWSREEEFLRDVLRPVAVVKFRAGLDAD
GMPVALEAVSATEGPTEALAGKQGEKIDPTALEGLSGKSYAIANKRIAQIYVKGPAMLGY
WRSVGNSLNDFFYESFLDELADKGGKDPFELRLHLLRDNPRLTNLLNAVADLSGGWKRGP
FTAEDGSKRARGVAMASPFGSEAAVIAEVSIDNGQVRVHDIWQAIDPGSIVNPAIIEHQV
NGAVALGLSQTLVEEAVYVDGKPRARNYDLYPILPPSRMARVHVRIIESGAKMGGIGEPP
LPAVAPAVANAVAQLTGQRVRSLPLSRHTFS