Protein Info for EX31_RS09110 in Rahnella sp. WP5

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 6 to 284 (279 residues), 184.3 bits, see alignment E=2e-57 amino acids 427 to 703 (277 residues), 163 bits, see alignment E=6e-51 PF13738: Pyr_redox_3" amino acids 91 to 258 (168 residues), 33.2 bits, see alignment E=1.9e-11 PF00070: Pyr_redox" amino acids 147 to 228 (82 residues), 58.5 bits, see alignment 4.4e-19 amino acids 566 to 636 (71 residues), 55.2 bits, see alignment 4.5e-18 PF18267: Rubredoxin_C" amino acids 320 to 378 (59 residues), 39.2 bits, see alignment (E = 3e-13) amino acids 736 to 804 (69 residues), 41.8 bits, see alignment 4.7e-14 TIGR02374: nitrite reductase [NAD(P)H], large subunit" amino acids 423 to 1217 (795 residues), 1095.5 bits, see alignment E=0 PF04324: Fer2_BFD" amino acids 840 to 886 (47 residues), 32.1 bits, see alignment (E = 6.7e-11) PF03460: NIR_SIR_ferr" amino acids 976 to 1037 (62 residues), 42.9 bits, see alignment (E = 1.8e-14) PF01077: NIR_SIR" amino acids 1048 to 1186 (139 residues), 86.5 bits, see alignment E=7.7e-28 TIGR02378: nitrite reductase [NAD(P)H], small subunit" amino acids 1271 to 1375 (105 residues), 102.7 bits, see alignment 1.1e-33 PF13806: Rieske_2" amino acids 1271 to 1375 (105 residues), 111 bits, see alignment 1.4e-35

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

Compare fitness of predicted isozymes for: 1.7.1.4

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

Find the best match in UniProt

Protein Sequence (1391 amino acids)

>EX31_RS09110 nitrite reductase small subunit NirD (Rahnella sp. WP5)
MDKPTLIVIGNGMAGVRLVERLCERAPERYRIVIIGEEKQPAYNRILLTPVLAGEKQFDD
IVTHDAQWYKRHNVTFIAGAAATEIDRTARRVRAGGQMFDYHHLVLATGSRPFMLAAPGA
QLRGIHGFRQQQDVENILSGDYAGQPVVVVGGGVLGVEAAAALALRGMQVSLLHRGNHLM
DSQLDEHSAELLRASLATRGITTLLQAQTVAYAGDPAGNVRAVRLSDGREIPAQRVVVAA
GVRPEIALAQAAGLDCDRGILVSVTLQTSDPAISAIGECCQQGELTAGLVAPCWQQAEAL
AARLAGAPVVSPVMHTVPLRLKVTGIDVFCAGELHGGDGAQIHTVSDPVDGHYRRLLLRD
NRLTGVLLWGDISDGPEYFARISHPANCQTPLSIFSPGDEPAIKSEQLPAEVTRSTAMSK
PVLVMAGHGMVGHHFLQQLVERELHRQYQVIVFAEEKSPAYDRVHLSEFFSGRSAESLSV
VEEGFFASTGIELRLGHSIGHIDTRHRFVVDHQGRQTAYDLLVLATGSYPFVPPIPGNDA
PGCLVYRTLDDLAAIQACAATGKTGVVVGGGLLGLEAANALKHLGLQTHVVEFAPRLMGV
QLDEGGAAMLRRKIEALDVQVHTGKETRAIVAGEASRYRMEFADGGHLETDLVLFSAGIR
PRDQLAKECGLEVGPRGGIVINDQCRTSDPAIFAIGECALWNGQIFGLVAPGYQMARTLA
DTLSGSEVAFKGADMSTKLKLLGVEVASVGDAHGRTPGSQSYSWVDGPAEVYKKIVVSQD
GKRLLGAVLVGDSNEYSTLLQMMLNDMPLPASPENLILPASAGAAPQTLGVAALPDGAQI
CSCHNVSKSDICDAVKGGCGDMAAVKACTKAATGCGGCAALTKQVMEFALTEMGVEVKKD
VCEHFAYSRQEIYHLVRMGNIRSFAELIQKHGHGSGCEICKPLAGSILASCWNDYLLKPQ
HLPLQDTNDRYFANIQKDGTYSVVPRIPAGEITPDGLIAIGLVAKRYNLYTKITGGQRVD
LFGARLEQLPEIWQQLVDAGFETGHAYGKSLRTVKSCVGSSWCRYGVQDSTGLALQLENR
YKGLRSPHKIKMAVSGCTRECAEAQSKDVGVIATEKGWNLYVCGNGGMKPRHADLLAQDM
STEDLIRTVDRFLMFYIRTADRLQRTSTWMDNLEGGMDYLRQVVLEDSLHIGAELESEMN
AVVGTYQCEWQTTLADPDRLALFRPFVNSSEPDEAVVMVTERQQVRPATSQERAGISVSA
VSQPVMAVQGWVELCDLSAIPANAGMAARLANRQIALFHLPEHPQQVFALSNHEPDSDAN
VLARGLVGDVKGEPVVISPLYKQRFRLHDGRSVDDAQLALSVWPVKVENGRVWVQEQPGV
KTAETIATVSV