Protein Info for GFF1238 in Xanthobacter sp. DMC5

Annotation: NADH-quinone oxidoreductase subunit M

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 50 100 150 200 250 300 350 400 450 503 transmembrane" amino acids 6 to 25 (20 residues), see Phobius details amino acids 37 to 57 (21 residues), see Phobius details amino acids 86 to 104 (19 residues), see Phobius details amino acids 116 to 133 (18 residues), see Phobius details amino acids 139 to 157 (19 residues), see Phobius details amino acids 169 to 189 (21 residues), see Phobius details amino acids 209 to 228 (20 residues), see Phobius details amino acids 241 to 261 (21 residues), see Phobius details amino acids 274 to 296 (23 residues), see Phobius details amino acids 303 to 322 (20 residues), see Phobius details amino acids 329 to 352 (24 residues), see Phobius details amino acids 372 to 394 (23 residues), see Phobius details amino acids 409 to 432 (24 residues), see Phobius details amino acids 453 to 472 (20 residues), see Phobius details TIGR01972: proton-translocating NADH-quinone oxidoreductase, chain M" amino acids 7 to 486 (480 residues), 644.3 bits, see alignment E=5.9e-198 PF01059: Oxidored_q5_N" amino acids 40 to 128 (89 residues), 30.2 bits, see alignment E=4.1e-11 PF00361: Proton_antipo_M" amino acids 133 to 418 (286 residues), 315.2 bits, see alignment E=4.2e-98

Best Hits

Swiss-Prot: 66% 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 95% identity to xau:Xaut_4621)

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 (503 amino acids)

>GFF1238 NADH-quinone oxidoreductase subunit M (Xanthobacter sp. DMC5)
MTDWPILSVVTFLPLVGALFILVVRGDDEVSARNARWVALWTTLVTFLVSLLLLPGFDAS
APGFQFVEKKAWLGDLASYHMGVDGISLPFVILTTFLMPFCILASWESVHKRVKEYMIAF
LVLETMMLGTFTALDLVLFYFFFEGGLIPMFLIIGVWGGPRRIYAAFKFFLYTLAGSVLM
MLAIMAMYWKAGTTDVPTLMQFGFPSGMQFWLWLAFFASFAVKMPMWPVHTWLPDAHVEA
PTAGSVILAGVLLKMGGYGFLRFSLPMFPEASHYFAPLVFTLSVVAIIYTSLVALVQEDI
KKLIAYSSIAHMGFVTMGIFAMNEQGLQGAMFLMISHGFVSAALFLCVGVIYDRLHTREI
AAYGGLVKRMPLYATVLMVFTMANVGLPGTSGFIGEFLTMLAAFERNTWVAFFAATGVIL
SAAYALWLYWRVVFGPLEKEKLKSMMDLSPREIVIMVPLVILTILFGVWPAPILNMTSHA
VNAVVARTDSVAGAVKTALLLSF