Protein Info for PP_1095 in Pseudomonas putida KT2440

Annotation: putative electron transport complex protein

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 50 100 150 200 250 323 transmembrane" amino acids 12 to 29 (18 residues), see Phobius details amino acids 35 to 55 (21 residues), see Phobius details amino acids 63 to 80 (18 residues), see Phobius details amino acids 86 to 104 (19 residues), see Phobius details amino acids 111 to 130 (20 residues), see Phobius details amino acids 187 to 207 (21 residues), see Phobius details amino acids 214 to 232 (19 residues), see Phobius details amino acids 244 to 261 (18 residues), see Phobius details amino acids 271 to 291 (21 residues), see Phobius details amino acids 297 to 316 (20 residues), see Phobius details TIGR01946: electron transport complex, RnfABCDGE type, D subunit" amino acids 8 to 313 (306 residues), 350.1 bits, see alignment E=6.9e-109 PF03116: NQR2_RnfD_RnfE" amino acids 8 to 319 (312 residues), 302.4 bits, see alignment E=1.9e-94

Best Hits

Swiss-Prot: 61% identical to RNFD_PSEA7: Ion-translocating oxidoreductase complex subunit D (rnfD) from Pseudomonas aeruginosa (strain PA7)

KEGG orthology group: K03614, electron transport complex protein RnfD (inferred from 100% identity to ppu:PP_1095)

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 Q88NV9 at UniProt or InterPro

Protein Sequence (323 amino acids)

>PP_1095 putative electron transport complex protein (Pseudomonas putida KT2440)
MSSPDPRLRTSMGLVLLACTPGLLALLWLHGWGMMLNLLLCASAALLCEALLLALRSQSL
SQALNDGSALVTAVLLAAALPTLAPWWLPVIAASVAIGIGKQAYGGVGRNLFNPAMVGYA
FVLLSFPLQMNHWPGQAPGLLDSVQQVFAGGGQIDAWARPTLLDGLRHNRSLTIDELFAS
HPGFGNIGGAGSEWVNLAFLLGGLFLLQRKVISWHAPAGLLAGLLVFSLLGWNGSGSDSN
GSPLLHLFSGSTMLAAFFIATEPVSGPRDDWAKLCFGVGTGVLIYLIRTWGSYPDGTAFA
VLLMNLFAPALERMAVQRQQAAR