Protein Info for GFF4762 in Variovorax sp. SCN45

Annotation: NADH-ubiquinone oxidoreductase chain M (EC 1.6.5.3)

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 50 100 150 200 250 300 350 400 450 492 transmembrane" amino acids 6 to 22 (17 residues), see Phobius details amino acids 30 to 50 (21 residues), see Phobius details amino acids 82 to 103 (22 residues), see Phobius details amino acids 112 to 129 (18 residues), see Phobius details amino acids 135 to 153 (19 residues), see Phobius details amino acids 165 to 184 (20 residues), see Phobius details amino acids 204 to 223 (20 residues), see Phobius details amino acids 240 to 260 (21 residues), see Phobius details amino acids 272 to 293 (22 residues), see Phobius details amino acids 300 to 319 (20 residues), see Phobius details amino acids 331 to 349 (19 residues), see Phobius details amino acids 370 to 391 (22 residues), see Phobius details amino acids 403 to 425 (23 residues), see Phobius details amino acids 447 to 466 (20 residues), see Phobius details TIGR01972: proton-translocating NADH-quinone oxidoreductase, chain M" amino acids 4 to 484 (481 residues), 623 bits, see alignment E=1.8e-191 PF01059: Oxidored_q5_N" amino acids 52 to 122 (71 residues), 24.3 bits, see alignment E=2.9e-09 PF00361: Proton_antipo_M" amino acids 131 to 411 (281 residues), 270.7 bits, see alignment E=1.5e-84

Best Hits

Swiss-Prot: 51% identical to NUOM_RHOCA: NADH-quinone oxidoreductase subunit M (nuoM) from Rhodobacter capsulatus

KEGG orthology group: K00342, NADH dehydrogenase I subunit M [EC: 1.6.5.3] (inferred from 98% identity to vpe:Varpa_4013)

Predicted SEED Role

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

MetaCyc Pathways

KEGG Metabolic Maps

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

Find the best match in UniProt

Protein Sequence (492 amino acids)

>GFF4762 NADH-ubiquinone oxidoreductase chain M (EC 1.6.5.3) (Variovorax sp. SCN45)
MGLLSLAIWVPIAFGAVLLAFGRDEHAKGVRWVALVGAIVSFLVTVPLFTRFQNGTAAMQ
FVEKTSWISRFNVNYHLGVDGLSLWLVLLTSFITVIVVISAWEVITERVNQYMGAFLILS
GFMIGVFSALDGVLFYVFFEATLIPMYLIIGIWGGPNKIYAAFKFFLYTLLGSLLMLVAL
IFLYNKSGGSFDILAWHKLPLGSTAQTFLFFAFFAAFAVKVPMWPVHTWLPDVHVEAPTG
GSAVLAAIMLKLGAYGFLRFSMPIAPDASHEWAWLMIALSLIAVIYVGLVALVQQDMKKL
VAYSSVAHMGFVTLGFFIFNELGVSGGIVQMIAHGFVSGAMFLGIGVLYDRVHSRQIADY
GGVVNTMPKFAAFALLFAMANCGLPGTAGFVGEWMVILGAVKANFWIGLGAATALIFGAA
YTLWMYKRVYLGPVGNDHVKELKDINAREFLMLSLLAIAVLWMGLYPKPFTDAMDASVTE
LLRHVAVSKLPS