Protein Info for PGA1_c20660 in Phaeobacter inhibens DSM 17395

Updated annotation (from data): TRAP transporter for fumarate, succinate, L-malate, and 2-oxogulatarate, large permease component
Rationale: Specifically important for utilization of fumarate, succinate, L-malate, and alpha-ketoglutarate. Phenotypes on alpha-ketoglutarate are more mild, which might indicate some genetic redundancy.
Original annotation: TRAP transporter, subunit DctM

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 50 100 150 200 250 300 350 400 467 transmembrane" amino acids 7 to 35 (29 residues), see Phobius details amino acids 55 to 75 (21 residues), see Phobius details amino acids 83 to 108 (26 residues), see Phobius details amino acids 113 to 131 (19 residues), see Phobius details amino acids 138 to 162 (25 residues), see Phobius details amino acids 171 to 193 (23 residues), see Phobius details amino acids 213 to 235 (23 residues), see Phobius details amino acids 241 to 258 (18 residues), see Phobius details amino acids 278 to 297 (20 residues), see Phobius details amino acids 307 to 327 (21 residues), see Phobius details amino acids 339 to 362 (24 residues), see Phobius details amino acids 369 to 398 (30 residues), see Phobius details amino acids 405 to 428 (24 residues), see Phobius details amino acids 430 to 453 (24 residues), see Phobius details PF06808: DctM" amino acids 8 to 451 (444 residues), 357.5 bits, see alignment E=4.8e-111 TIGR00786: TRAP transporter, DctM subunit" amino acids 17 to 260 (244 residues), 274.2 bits, see alignment E=8.4e-86

Best Hits

Predicted SEED Role

"TRAP-type C4-dicarboxylate transport system, large permease component"

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 I7DRS6 at UniProt or InterPro

Protein Sequence (467 amino acids)

>PGA1_c20660 TRAP transporter for fumarate, succinate, L-malate, and 2-oxogulatarate, large permease component (Phaeobacter inhibens DSM 17395)
MDVVLLFSMVIGLLLIGVPIAVALGLSSTLFLLIYSDSSLASVAGTLFEAFEGHFTLLAI
PFFILASSFMTTGGVARRIIRFSIACVGHLPGGLAIAGVFACMLFAALSGSSPATVVAIG
SIVIAGMRQVGYSKEFAAGVICNAGTLGILIPPSIVMVVYAAAVEVSVGRMFLAGVIPGL
MAGLMLMVTIYVMAKVKNLPKGEWLGWGEVAASAANASVGLLLIGIILGGIYGGIFTPTE
AAAVASVYAFFVATFVYRDMGPLKSAPKPKDMGQFLTMLPKMLGQTVVYFIPSFFHADTR
HALFEAGKLTVTLLFVIANALILKHVLTDEQVPQQIATAMLSAGFGPVMFLIVVNVILLI
GGQFMEPSGLLVIVAPLVFPIAIELGIDPIHLGIIMVVNMEIGMITPPVGLNLFVTSGVA
GMPMMAVVRAALPFLAVLFVFLIMITYIPWISTVLPNAVMGPEIITK