Protein Info for PP_3948 in Pseudomonas putida KT2440

Updated annotation (from data): nicotinate dehydrogenase subunit B (EC 1.17.2.1)
Rationale: Specific phenotype: utilization of Nicotinic Acid. Also known as nicotinate hydroxylase
Original annotation: nicotinate dehydrogenase subunit B

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

1 100 200 300 400 500 600 700 800 900 1000 1100 1187 transmembrane" amino acids 764 to 786 (23 residues), see Phobius details PF20256: MoCoBD_2" amino acids 47 to 188 (142 residues), 87.1 bits, see alignment E=3.2e-28 amino acids 581 to 687 (107 residues), 58 bits, see alignment E=2.3e-19 PF02738: MoCoBD_1" amino acids 313 to 550 (238 residues), 109.8 bits, see alignment E=2.4e-35 PF00034: Cytochrom_C" amino acids 807 to 906 (100 residues), 43 bits, see alignment E=1.9e-14 amino acids 1078 to 1161 (84 residues), 26.3 bits, see alignment 3.1e-09 PF13442: Cytochrome_CBB3" amino acids 1078 to 1159 (82 residues), 40.5 bits, see alignment 5.6e-14

Best Hits

Swiss-Prot: 100% identical to NICB_PSEPK: Nicotinate dehydrogenase subunit B (nicB) from Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)

KEGG orthology group: None (inferred from 100% identity to ppu:PP_3948)

MetaCyc: 100% identical to nicotinate hydroxylase large subunit (Pseudomonas putida KT2440)
NICOTINATE-DEHYDROGENASE-RXN [EC: 1.17.2.1]

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 1.17.2.1 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 Q88FX8 at UniProt or InterPro

Protein Sequence (1187 amino acids)

>PP_3948 nicotinate dehydrogenase subunit B (EC 1.17.2.1) (Pseudomonas putida KT2440)
MNHSQQVPSRDQLLAKTGVLLIVDQITPPSGPVAKGVTPTVKERELALFIAVSDDGMVYA
FNGHVDLGTGIRTSLAQIVAEELDLRMDQVHMVLGDTERAPNQGATIASATLQISAVPLR
KAAATARRYLLQQAALRLGCPPEMLRIEDGTVIASNGSTLSFAELVQGKNHQLHIADDAP
LKAIEDYRLVGRSAPRVDIPGKATGELTYVHDMRLPNMLHGRVIRPPYAGHDSGDFVGNS
LLAVDESSIAHLPGVVAVVVIRDFVGVVAEREEQAIRAAHELKVSWKPFTGKLPDLSDVA
QAIRDNPRVQRTVLDQGDVDGGIANASQRLSRSYLWPYQLHASIGPSCALADFTAGQIRV
WSGTQNPHLLRADLAWLLACDEARIEIIRMEAAGCYGRNCADDVCADAVLLSRAVQRPVR
VQLTREQEHVWEPKGTAQLMEIDGGLNADGSVAAYDFQTSYPSNGAPTLALLLTGAVEPV
PALFEMGDRTSIPPYDYEHMRVTINDMTPLVRASWMRGVSAMPNSFAHESYIDELAFAAG
VDPVEYRLKHLSDPRAIDLVKATAERAQWQPHTRPMQTQAEGDVLRGRGFAYARYIHSKF
PGFGAAWAAWVADVAVDRRTGEVAVTRVVIGHDAGMMVNPEGVRHQIHGNVIQSTSRVLK
EQVSFEESTVASKEWGGYPILTFPELPAIDVMMLPRQHEPPMGSGESASVPSAAAIANAI
FDATGIRFRELPITAERVRAALGGEGQGPDAPAPAQPSTKRSKWWFGSLAGVFGAALGML
ATALPWRAEIAPVTPPGVGSWSAAMLERGRQVAAAGDCAVCHTVSGGKANAGGLAMDTPF
GTLYSTNITPDPETGIGRWSFAAFERAMREGISRDGRHLYPAFPYTSFRNINDADMQALY
AYLMSQTPVRQEAPANQMRFPFNQRPLMAGWNARFLQRGEYQPDPQRSAQWNRGAYLVDG
LGHCTACHSPRNLMGAEKGGSSYLAGGMVDGWEAPALNALGKSSTPWSEDELFNYLSTGF
SEKHGVAAGPMGPVVSELATLPKSDVRAIAHYLSSLEGEPQALAANAAPQVDTHVSLSNG
ERVFKGACLGCHSDGLGPKLFGVSPSMAVNSNVHSDLPDNLLRVVLHGIPTPATRDLGYM
PGFKDSLSDRQVADLAAYLRHRFAADKPAWQGLASKAAQVRANPGSH