Protein Info for Shew_2069 in Shewanella loihica PV-4

Annotation: electron transport complex, RnfABCDGE type, D subunit (RefSeq)

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 signal peptide" amino acids 1 to 35 (35 residues), see Phobius details transmembrane" amino acids 44 to 64 (21 residues), see Phobius details amino acids 78 to 109 (32 residues), see Phobius details amino acids 120 to 150 (31 residues), see Phobius details amino acids 214 to 232 (19 residues), see Phobius details amino acids 239 to 259 (21 residues), see Phobius details amino acids 265 to 284 (20 residues), see Phobius details amino acids 296 to 314 (19 residues), see Phobius details amino acids 320 to 339 (20 residues), see Phobius details PF03116: NQR2_RnfD_RnfE" amino acids 5 to 345 (341 residues), 335.8 bits, see alignment E=1.2e-104 TIGR01946: electron transport complex, RnfABCDGE type, D subunit" amino acids 8 to 346 (339 residues), 439.2 bits, see alignment E=5.4e-136

Best Hits

Swiss-Prot: 100% identical to RNFD_SHELP: Ion-translocating oxidoreductase complex subunit D (rnfD) from Shewanella loihica (strain ATCC BAA-1088 / PV-4)

KEGG orthology group: K03614, electron transport complex protein RnfD (inferred from 100% identity to slo:Shew_2069)

Predicted SEED Role

"Electron transport complex protein RnfD" in subsystem Na(+)-translocating NADH-quinone oxidoreductase and rnf-like group of electron transport complexes

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 A3QEN7 at UniProt or InterPro

Protein Sequence (350 amino acids)

>Shew_2069 electron transport complex, RnfABCDGE type, D subunit (RefSeq) (Shewanella loihica PV-4)
MAFKLASSPHLSTKAQTRGLMFKVMLCALPGALAQCYFFGWGTLIQIALAIAIAVATEAA
VLKLRARPVGKTIRDNSAALTGLLIGVAIPALAPWWIAAIGVIFAILVVKQLYGGLGNNI
FNPAMAAYVMLLISFPMQMTTWVAPSGAALHDLGLMQSLSVIFQGADAEQVLAYRAGIDG
VTMATPLDAVKTGLSTGLTLDEILTKASFSDGFGIGWALINLAYLAGGLVMLKLKLIRWQ
ISTAILASLFVCASIGYLLSPDTHMGPLLHLFSGATMLAAFFIATDPVTAATSTRGRLIF
GSLIGLLVYLIRSFCGYPDAFAFAVLLANLCAPFIDYYVKPRAYGHRASR