Protein Info for SO2511 in Shewanella oneidensis MR-1

Annotation: membrane protein, putative (NCBI ptt file)

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 50 100 150 200 250 300 349 transmembrane" amino acids 21 to 61 (41 residues), see Phobius details amino acids 72 to 89 (18 residues), see Phobius details amino acids 95 to 113 (19 residues), see Phobius details amino acids 125 to 144 (20 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 266 to 285 (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), 350 bits, see alignment E=6.1e-109 TIGR01946: electron transport complex, RnfABCDGE type, D subunit" amino acids 8 to 346 (339 residues), 477.3 bits, see alignment E=1.3e-147

Best Hits

Swiss-Prot: 100% identical to RNFD_SHEON: Ion-translocating oxidoreductase complex subunit D (rnfD) from Shewanella oneidensis (strain MR-1)

KEGG orthology group: K03614, electron transport complex protein RnfD (inferred from 100% identity to son:SO_2511)

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 Q8EE78 at UniProt or InterPro

Protein Sequence (349 amino acids)

>SO2511 membrane protein, putative (NCBI ptt file) (Shewanella oneidensis MR-1)
MAFKIASSPHVTRNLQTSTVMQRVILCLLPGLVVQCAFFGWGTLIQVLLAIIVALSCEAA
VMKLRKRSIKASLGDNSAMLTAILIGVAIPPLAPWWMIVMGTAFAIVIVKHLYGGLGHNL
FNPAMAAYVLLLVSFPLQMTTWIAPSTVALNTPSIVDSLQLIFNVGAHVGMEQFRLGIDG
ISMATPLDTLKTDLSLGLTTTESMAKSIFDGSTGVGWFWVNLAYLAGGIVLLKLKAIRWH
ISTGVLAGLFVASSVGFLLSPDTHASPLFHLFSGATMLAAFFIATDPVTAATSPRGRIIF
GALIGVLVYIIRTQGGYPDAFAFAVLLANLCAPFIDYYVRPRTYGHSAG