Protein Info for Rru_A1556 in Rhodospirillum rubrum S1H

Annotation: NADH dehydrogenase (ubiquinone), 20 kDa subunit (NCBI)

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

Best Hits

Swiss-Prot: 100% identical to NUOB_RHORT: NADH-quinone oxidoreductase subunit B (nuoB) from Rhodospirillum rubrum (strain ATCC 11170 / ATH 1.1.1 / DSM 467 / LMG 4362 / NCIB 8255 / S1)

KEGG orthology group: K00331, NADH dehydrogenase I subunit B [EC: 1.6.5.3] (inferred from 100% identity to rru:Rru_A1556)

MetaCyc: 59% identical to ferredoxin-menaquinone dehydrogenase subunit B (Helicobacter pylori 26695)
7.1.1.-

Predicted SEED Role

"NADH-ubiquinone oxidoreductase chain B (EC 1.6.5.3)" in subsystem Respiratory Complex I (EC 1.6.5.3)

MetaCyc Pathways

aerobic respiration III (alternative oxidase pathway) (3/3 steps found)
aerobic respiration I (cytochrome c) (3/4 steps found)
NADH to cytochrome bd oxidase electron transfer I (1/2 steps found)
NADH to cytochrome bo oxidase electron transfer I (1/2 steps found)
NAD(P)/NADPH interconversion (3/6 steps found)
Fe(II) oxidation (2/6 steps found)

KEGG Metabolic Maps

Oxidative phosphorylation

Isozymes

Compare fitness of predicted isozymes for: 1.6.5.3

Use Curated BLAST to search for 1.6.5.3

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

See Q2RU39 at UniProt or InterPro

Protein Sequence (185 amino acids)

>Rru_A1556 NADH dehydrogenase (ubiquinone), 20 kDa subunit (NCBI) (Rhodospirillum rubrum S1H)
MGVSTPVIVPRGGAPVPPGPDQDLILGQVAREIEEKGFVLSNVDSLVNWARAGSLWPMTF
GLACCALEMIHCACARYDLDRFGTVFRPSPRQSDVMIVAGTLTNKMAPALRKVYDQMAEP
RWVISMGSCANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTSEALLYGVLQLQKKIKRT
GALYR