Protein Info for HMPREF1078_RS15525 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 50 100 150 200 250 300 350 400 450 500 550 593 signal peptide" amino acids 1 to 25 (25 residues), see Phobius details PF14322: SusD-like_3" amino acids 26 to 214 (189 residues), 46.7 bits, see alignment E=4.7e-16 PF07980: SusD_RagB" amino acids 291 to 593 (303 residues), 179.8 bits, see alignment E=9.9e-57

Best Hits

KEGG orthology group: None (inferred from 73% identity to bfr:BF0953)

Predicted SEED Role

"Putative outer membrane protein, probably involved in nutrient binding"

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 (593 amino acids)

>HMPREF1078_RS15525 RagB/SusD family nutrient uptake outer membrane protein (Parabacteroides merdae CL09T00C40)
MKTVNNIFKHTFFCLALGTTVCSCDLDVEPTSSIATETFWTSEKDAWYNLNAVYSASIPG
AAVHSDSYTNDAYCQYSWESNGAIYQQNGLSALYDEGYNFETVRKQNIFLQEIENVPMDE
DLKTRFKAEVRAMRAWTYLNLTTTFGKVPLITDVLSYDAPNIPRDETSKIREFILNELTE
AAAILPEKYAGSYPNEKGRMTKYAALAVKARAALYFGDYPTAEAAAKEIMDKGGFSLFQV
SELTEAQKKEAEEMELYIDFDKYGIDRDKFMKGMFSYESLWHTENGNPDNPEYVMTRQYT
ASSWDYQDMTRYTSIRPNQLGGWSSVTPTQNLVDAYWTVDGKTPSIPSIEKRMNAYKVIK
GDLDEYKAPAGEAKFISFASGLINSGKLKDYEYMQEFRNRDSRLYASILFPFKGWYETNY
GTNFIYEWIKNGNNESKTGFNFRKMSPLENDANNDGQATGDYPCIRYAEVLLIFAEAHTQ
TTGFDGQTQAALNQLRDRCGMPNVPTSLGKEDGLALIKNERRIELAGEGLRSDDLSRYGD
AYWSAQMNNVPISTPDGEKVITMKWDSRMSLRPIPQTAIDLNPLLATDQNPGY