Protein Info for GFF655 in Xanthobacter sp. DMC5

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 1182 transmembrane" amino acids 756 to 777 (22 residues), see Phobius details PF20256: MoCoBD_2" amino acids 45 to 171 (127 residues), 81.3 bits, see alignment E=1.8e-26 amino acids 594 to 684 (91 residues), 59 bits, see alignment 1.1e-19 PF02738: MoCoBD_1" amino acids 308 to 546 (239 residues), 105.6 bits, see alignment E=4.7e-34 PF00034: Cytochrom_C" amino acids 797 to 896 (100 residues), 37 bits, see alignment E=1.4e-12 amino acids 1077 to 1156 (80 residues), 29.1 bits, see alignment 4.1e-10 PF13442: Cytochrome_CBB3" amino acids 1077 to 1155 (79 residues), 37.5 bits, see alignment 4.9e-13

Best Hits

Swiss-Prot: 62% 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 78% identity to azc:AZC_2801)

MetaCyc: 62% 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)

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

Find the best match in UniProt

Protein Sequence (1182 amino acids)

>GFF655 Nicotinate dehydrogenase subunit B (Xanthobacter sp. DMC5)
VSEPRPDPAALLAATGNLAILRPAQVVHGLVPSAAPKDGALDLFLLVDDTGTVTAFNGHV
DLGTGIRTALAQIVAEELDVALDRVTMVLGHTGVAPNQGGTIASDSIQVSARPLRHAAAQ
ARAHLVTLAAEALGIPADQLEVEEGIVRPKDGRNTGLSYADLLKGRADRLMLHQETAVKP
ASEHRIVGRRVPRVDIPAKATGTFTYVHDVRVPGMLHGRVVRPPYAGIDAGPFVGKSLIR
VDEHSVAHVPGVVAVVTMGDFIGVVAEREEQAAEAARVLKAEWRDTPALPDLSRTEEALR
GAEKAKTRLLHEQGNLDTARADAAQVLEATYVWPYQMHASIGPSCAVADVREDSATIWAG
TQNPYWLRTDISLLLGLPEEDIEIIRFEAAGCYGRNCADDVAADAALLSRAVGRPVRVQL
TREQEHAWEPKGAGQLMEVKGGINADGTPAFYDFRTRYPSNAAVTLALLLTGRVPADNPV
YEMGDRTAIPPYAYDVMRVAVDDVAPIVRASWLRGVSALPNSFAHESYVDELAAAAGVDP
VDYRLRHLHDPRAVDLVKATAERAGWQKRTGPRQEVVEGDIVRGQGFAYALYVHSKFPGY
GAAWSAWVADVEVNTKTGDVAVKRVTVGQDSGLMINPAGIEHQIHGNVIQSTSRALKEQV
TFDEQAVTSREWGAYPILTFPEVPVINVVLMHRPDDPPLGSGESASVPSAAAIANAIFDA
TGVRLREPPFTPDRVRAALAGEAPPRPVKEKKRRPWFAMAGAALAGALGMATLVLPIRGA
IAPIAPPDPATFSADMIARGKVLAALGDCAVCHTAEGGIANAGGRPLHTPFGTVYSTNLT
PDVETGIGTWSYAAFERAMREGIGRDGRHLYPAFPYTAFSRISDADMQALYAFLMSQPAV
TAAPPENRMTFPFNIRPLMAGWNFLFHRPSQLQAEPARSPQWNRGRYLVEGLGHCGACHT
PRNALGAEKGGAAYLAGGVADGWEAPALTELSKAPIPWTEDELFTYLRTGFSRFHGTAAG
PMAPVVHALSEAPDADVRAMAVYLSSLSGPTIADPVTAAATLEAKAEASLRPMDTVGGRL
FAGACAACHAPEGPTLFGARPALALNTNVHAARPDNLIRVILEGIPKPAAPELGDMPAFR
DSLNDAQVADLVRYMRAKFAPDTPAWEGLEGTVARLRAAPTH