Protein Info for DDA3937_RS14090 in Dickeya dadantii 3937

Annotation: nitrite reductase small subunit NirD

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 1200 1300 1391 PF07992: Pyr_redox_2" amino acids 4 to 289 (286 residues), 183.7 bits, see alignment E=4.4e-57 amino acids 424 to 704 (281 residues), 181.9 bits, see alignment E=1.5e-56 PF00070: Pyr_redox" amino acids 144 to 213 (70 residues), 54 bits, see alignment 1.6e-17 amino acids 566 to 637 (72 residues), 54.1 bits, see alignment 1.5e-17 PF18267: Rubredoxin_C" amino acids 323 to 389 (67 residues), 48.9 bits, see alignment 4.2e-16 amino acids 737 to 801 (65 residues), 43.3 bits, see alignment 2.4e-14 TIGR02374: nitrite reductase [NAD(P)H], large subunit" amino acids 424 to 1216 (793 residues), 1134.7 bits, see alignment E=0 PF04324: Fer2_BFD" amino acids 841 to 888 (48 residues), 41.3 bits, see alignment (E = 1.2e-13) PF03460: NIR_SIR_ferr" amino acids 977 to 1038 (62 residues), 46.7 bits, see alignment (E = 1.8e-15) PF01077: NIR_SIR" amino acids 1049 to 1185 (137 residues), 80.1 bits, see alignment E=1.1e-25 TIGR02378: nitrite reductase [NAD(P)H], small subunit" amino acids 1268 to 1376 (109 residues), 88.4 bits, see alignment 3.2e-29 PF13806: Rieske_2" amino acids 1268 to 1376 (109 residues), 100.2 bits, see alignment 4.7e-32

Best Hits

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

No predicted isozymes

Use Curated BLAST to search for 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

See E0SKC9 at UniProt or InterPro

Protein Sequence (1391 amino acids)

>DDA3937_RS14090 nitrite reductase small subunit NirD (Dickeya dadantii 3937)
MSAHLVIIGNGLSSVRLVKRLGQLAPQRYRVTVIDREPRDSYNRVLLSSVLGGEKSFEDT
QLEPAPETMDVTTLTGESVLRIDRSAREVITDRRRLAYDQLVFATGSRPFMPPLPGIDLP
GVMGFRTLDDVERMWAAVRQEKPVVVIGGGLLGIEAAAALRLQGATVTLLHRHARLMERQ
LDATASDLLCTRLHERGIRCLTGVQIQALSGNELSGNELSGGKQVEAVELADGTRLPAGL
VVVATGVQPVCELARDSGLACGRGILADGQLRTADEYVSAVGECAEVKGETVGLVAPCLA
QADVLAARLAEQPVADYAPAALATRLKVTGIDVVSAGELHPQEGDRLHSLSDPLGGHYRR
LIFRDDRLCGALLFGHVSDSPQLLAAMETRLSSAPSSLLFGLSFPEVDIRPAAVRISVMS
KPVLVVVGHGMVGHHFLEQLVERNLHQQYHVVVFGEERHPAYDRVHLSEYFAGRSAESLS
MVSEGFFEQTGIELRTGCQVMTIDRQRRCVRDANGQETPYDRLVLATGSYAFVPPIKGND
RPGCLVYRTLDNLDAIADQARESRSGVVVGGGLLGLEAANALRQLGLETHVVEFAPRLMA
VQLDDGGAQLLRRKIEALNLHVHTSKETVAITAGEQARHRMNFADGTSLETDLILFSAGI
RPRVRLASEAGLEIGVRGGIVIDDHCQTSDDAIFAIGECAVWQGQIFGLVAPGYQMARTV
AARLAQQEQTFIGADMSTKLKLLGVDVASIGDAHGKTEGSLSYQWNDEPNQVYKKIIVSA
DGKRLLGAVLVGDSSDYSTLLQMKLNDMTLPAHPESLILPALDGAAPKGLGVAALPDSAQ
ICSCHNVSKADICAAVDNGCTDLASLKACTKAGTGCGGCVPLLKQVMEYQLQQSGIEVKK
DICEHFAYSRQELYHLIRVNRIRSFDELIARHGHGLGCEICKPLAGSMLASCWNDYVLKP
EHVPLQDTNDRFLANIQKDGTYSVVPRIPGGEITPQGLIAIGQVAERYHLYTKITGGQRV
DLFGARLEQLPAIWQELIDAGFETGHAYGKSLRTVKSCVGSTWCRYGVQDSTTLAIALEH
RYKGLRSPHKLKMAVSGCTRECAEAQGKDIGVIATDKGWNLYVCGNGGMKPRHADLLASD
LDTDTLFRLIDRLLMFYIRTGDRLQRTSVWLDNLEGGIDYLRQVVIDDSLGIAEELENEM
RHVIDSYQCEWQTTLAHDENRALFRAFLNSDTPDEAVVMVPERGQPRPARLEEKTPTTAS
DAPGAEGWQCVGFLSDIPANAGMAARVGHQQVALFHLPAAQPGQAGHVFALDNQEPGSGA
NVLSRGIVGDVAGEPVVISPLYKKRLRLRDGVSPDDSELRVRAWPVRVVQDRIWVANEPM
AVVAADMAEAL