Protein Info for HER17_RS19685 in Pectobacterium carotovorum WPP14

Annotation: TRAP transporter large permease

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 50 100 150 200 250 300 350 400 430 signal peptide" amino acids 1 to 24 (24 residues), see Phobius details transmembrane" amino acids 53 to 71 (19 residues), see Phobius details amino acids 80 to 105 (26 residues), see Phobius details amino acids 168 to 193 (26 residues), see Phobius details amino acids 213 to 236 (24 residues), see Phobius details amino acids 242 to 258 (17 residues), see Phobius details amino acids 275 to 296 (22 residues), see Phobius details amino acids 314 to 330 (17 residues), see Phobius details amino acids 336 to 353 (18 residues), see Phobius details amino acids 359 to 385 (27 residues), see Phobius details amino acids 398 to 421 (24 residues), see Phobius details PF06808: DctM" amino acids 8 to 417 (410 residues), 391.6 bits, see alignment E=2.2e-121 TIGR00786: TRAP transporter, DctM subunit" amino acids 17 to 422 (406 residues), 434.8 bits, see alignment E=1.4e-134

Best Hits

Swiss-Prot: 47% identical to YGIK_SALTY: Uncharacterized protein YgiK (ygiK) from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

KEGG orthology group: None (inferred from 100% identity to eca:ECA0355)

MetaCyc: 36% 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 (430 amino acids)

>HER17_RS19685 TRAP transporter large permease (Pectobacterium carotovorum WPP14)
MDAFILIATLAVLLAVGVPVAYAVGLSAIVGAFWIDLPLEAVMIQITNGVNKFSLLAIPF
FILAGAIMAEGGIARRLVSFAYIFVGFIRGGLSLVNIVASTFFGAISGSSVADTASIGSV
MIPEMEKKGYPRDFSAAVTASGSVQAILTPPSHNSVIYSLATGGTVSIASLFIAGILPGL
LLSLTLMVMCVGFAHRRGYPKGERVPFRQALKIFVDTLWGLMTVVIIMGGILSGIFTATE
SAAIACLWSFFVTMFIYKDYKWSELPKLMYRTVKTVTIVMILIGFAAAFGAIMTYMQLPS
RITEFFTSISDNKYVILMWINIMLLLLGTLMDMAPLILILTPVLLPVALSLGIDPVHFGM
IMLVNLGIGLITPPVGSVLFVASAVSKQKIEQVVKAMLPFYCGLFFVLMLVTYIPAISLW
LPKFFGVHTG