Protein Info for HMPREF1078_RS14105 in Parabacteroides merdae CL09T00C40

Annotation: RagB/SusD family nutrient uptake outer membrane 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 50 100 150 200 250 300 350 400 450 500 550 600 629 signal peptide" amino acids 1 to 24 (24 residues), see Phobius details PF14322: SusD-like_3" amino acids 66 to 221 (156 residues), 71.6 bits, see alignment E=1e-23 PF07980: SusD_RagB" amino acids 349 to 609 (261 residues), 107.7 bits, see alignment E=9.1e-35

Best Hits

Predicted SEED Role

"FIG00652650: hypothetical protein"

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

Find the best match in UniProt

Protein Sequence (629 amino acids)

>HMPREF1078_RS14105 RagB/SusD family nutrient uptake outer membrane protein (Parabacteroides merdae CL09T00C40)
MKNNKQKYIIGALALLPLLTTGCKESWLDPKPLSFYTPENTYVDAEGMYSAIVACERNMR
HEFFGDQSPILTEYYTSDVAVNGKTDESGALVDFDNYMLPTQTQNNAKNKMQWYWDEGFK
GIKYANIVLSRIDAGTYKDEAERNAVLGTAYFQRAYRYYKLTHQFGNVPFLDREYTEPKL
DFYSHDRWSILEQLKKDLEFAYEWVPEKVDRGRTSKAACGVLLMKVAMCLGDFDRAIEIG
KEIVANHPLMTARFTSNKNKPNTNLMHDLHSVEAKMDMSNTEGLMYVVSYPDVEGRDRIQ
TMRNATPYWAKGAAIVTPDGKTGTAISPAAADKGTEIDNDLHVGRGIGSCRANNYLQYDI
WGEKEKNDLRSPNASGSWRRMTDLYYNDPGLKGKSEWYGKHLVRPTNMSVSDSVRCWFSW
PHYKLFVPDPTKDTDRSGGETAWYIYRSAEVYLLMGECYYWKDQLQEAANMLNVVRERAG
AEPLNGSEINIGAILAERARELYYEECRHIELVRISYIYAKTGKPCEVFGGRVYKLDNFS
GPGGTGSNVKEPGYNFWYDWMMTVNNFFRDGTEVANGKYRISVHHVLWPVPYNAITTNTG
GVINQNIGYPGAENNITPLKVGEETPAGK