Protein Info for HER17_RS01845 in Pectobacterium carotovorum WPP14

Annotation: nitrite reductase large subunit NirB

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 PF07992: Pyr_redox_2" amino acids 5 to 305 (301 residues), 184.6 bits, see alignment E=8.6e-58 TIGR02374: nitrite reductase [NAD(P)H], large subunit" amino acids 6 to 801 (796 residues), 1246 bits, see alignment E=0 PF00070: Pyr_redox" amino acids 148 to 224 (77 residues), 63.4 bits, see alignment E=6.8e-21 PF18267: Rubredoxin_C" amino acids 321 to 390 (70 residues), 36.6 bits, see alignment E=1.1e-12 PF04324: Fer2_BFD" amino acids 424 to 471 (48 residues), 53.7 bits, see alignment 6.6e-18 PF03460: NIR_SIR_ferr" amino acids 560 to 622 (63 residues), 47.3 bits, see alignment 4.1e-16 PF01077: NIR_SIR" amino acids 633 to 768 (136 residues), 70.5 bits, see alignment E=3.5e-23

Best Hits

Swiss-Prot: 80% identical to NIRB_ECOLI: Nitrite reductase (NADH) large subunit (nirB) from Escherichia coli (strain K12)

KEGG orthology group: K00362, nitrite reductase (NAD(P)H) large subunit [EC: 1.7.1.4] (inferred from 97% identity to eca:ECA4079)

MetaCyc: 80% identical to nitrite reductase (NADH) large subunit (Escherichia coli K-12 substr. MG1655)
RXN-13854 [EC: 1.7.1.15]

Predicted SEED Role

"Nitrite reductase [NAD(P)H] large subunit (EC 1.7.1.4)" in subsystem Nitrate and nitrite ammonification (EC 1.7.1.4)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.7.1.4

Use Curated BLAST to search for 1.7.1.15 or 1.7.1.4

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

Find the best match in UniProt

Protein Sequence (850 amino acids)

>HER17_RS01845 nitrite reductase large subunit NirB (Pectobacterium carotovorum WPP14)
MNKVRLAVIGNGMVGHRFIEELLDKAPTSTYDITVFCEEPRVAYDRVHLSSYFAHHTVEE
LSLVREGYYEKNGVKVLLGERAITINRSEKAIHSNSGRTVYYDKLIMATGSYPWIPSIKG
SNGQDCFVYRTIEDLNAIENCARRSKRGAVIGGGLLGLEAAGALKHLGVETHVIEFAPVL
MAEQLDAQGGALLQRKIENMGVRVHTSKNTQAIQHSGLENRKTMVFADGSTLEVDFIVFS
TGIRAQDKLARQCALEIGPRGGIAINDWCQTSDPDVYAIGECAAWQGRPFGLVAPGYKMA
QVAVDHLLGHENRFQGADMSAKLKLMGVDVGGIGDAHGHTPGSRSYMWLDENKETYKRLI
VSADNKTLLGAVLVGDTRDYGNLLQFMLNKIPLPDSPEALILPASAGSAKPTLGVDALPE
SAQICSCFDVSKGDIIKAINGGCHTIAALKETTKAGTGCGGCIPLLTQVLNAELSKQGIE
VNNHLCEHFAYSRQELYHLIQIEKIKTFDQLLEKHGSGYGCEVCKPTAASLLASCWNEYV
LKPQHTPLQDSNDNFLGNIQKDGTYSVIPRSAGGEITPDGLIAIGRIAKQYNLYTKMTGS
QRMALFGVQKDDLPDVWAQLIEAGFETGHAYAKALRMAKTCVGSTWCRFGVGDSVGFGVE
LENRYKGIRTPHKMKFGVSGCTRECAEAQGKDVGIIATEKGWNLYVCGNGGMKPRHADLL
AADLDRETVVHYLDRFMMFYIRTADKLQRTSVWLDNLEGGIDYLRNVIVKDKLGINDQLE
ADIARLREGYICEWQATLEDPDAQKRFAHFINSPERDPNVQMVNERQQHRPARPAERIPV
KQIELEGESA