Protein Info for PFR28_01613 in Pseudomonas sp. RS175

Annotation: Sialic acid TRAP transporter large permease protein SiaM

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 50 100 150 200 250 300 350 400 426 transmembrane" amino acids 12 to 35 (24 residues), see Phobius details amino acids 54 to 72 (19 residues), see Phobius details amino acids 92 to 110 (19 residues), see Phobius details amino acids 113 to 130 (18 residues), see Phobius details amino acids 139 to 163 (25 residues), see Phobius details amino acids 170 to 192 (23 residues), see Phobius details amino acids 213 to 234 (22 residues), see Phobius details amino acids 240 to 256 (17 residues), see Phobius details amino acids 277 to 295 (19 residues), see Phobius details amino acids 314 to 343 (30 residues), see Phobius details amino acids 355 to 375 (21 residues), see Phobius details amino acids 396 to 418 (23 residues), see Phobius details PF06808: DctM" amino acids 7 to 416 (410 residues), 419.5 bits, see alignment E=7.2e-130 TIGR00786: TRAP transporter, DctM subunit" amino acids 17 to 418 (402 residues), 481.1 bits, see alignment E=1.3e-148

Best Hits

Swiss-Prot: 59% identical to YIAN_ECOLI: 2,3-diketo-L-gulonate TRAP transporter large permease protein YiaN (yiaN) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 90% identity to pba:PSEBR_a2754)

MetaCyc: 59% identical to 2,3-diketo-L-gulonate:Na+ symporter - membrane subunit (Escherichia coli K-12 substr. MG1655)
TRANS-RXN0-235

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)

Search 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 (426 amino acids)

>PFR28_01613 Sialic acid TRAP transporter large permease protein SiaM (Pseudomonas sp. RS175)
MTLAIFLGSLMGSMALGIPIAFALLVVSVALMVYLDLFDAQIIAQNLLNGADSFPLMAVP
FFMLAGEIMNVGGLSKRIVNIAMALVGHKRGGLGYVAIIASCLLASLSGSAVADAAALAA
LLVPMMVLAGHSRGRSAGLIAAGSIIAPVIPPSIGFIVFGVASGVSISKLFLAGIVPGLL
LGASLAVAWWYISRNEHVETPPKRSRAEVLRTLLDGSWALGLPLIIILGLKFGIFTPTEA
AVVAAVYSLFVSLVIYREMKVSQLYEVILSSARTTSVVMLLVAAAMVSSWLVTIADLPGQ
LAELLAPFMDNQTLLLLVMMALIILVGTVMDMTPTILILTPVLMPAVIQAGIDPVYFGVL
FLINTAIGLITPPVGTVLNVVCGVAKLDFEEIVRGVWPFMLAQFVVLFLLVLFPQLVLGP
LKFFTG