Protein Info for HMPREF1078_RS06355 in Parabacteroides merdae CL09T00C40

Annotation: TolB family 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 50 100 150 200 250 307 signal peptide" amino acids 1 to 19 (19 residues), see Phobius details PF07676: PD40" amino acids 44 to 66 (23 residues), 18.7 bits, see alignment (E = 1.4e-07) amino acids 134 to 161 (28 residues), 35.3 bits, see alignment (E = 8.3e-13) amino acids 286 to 300 (15 residues), 12.6 bits, see alignment (E = 1.1e-05)

Best Hits

Swiss-Prot: 45% identical to Y1656_AGRFC: Uncharacterized protein Atu1656 (Atu1656) from Agrobacterium fabrum (strain C58 / ATCC 33970)

KEGG orthology group: None (inferred from 82% identity to pdi:BDI_2988)

Predicted SEED Role

"tolB protein precursor, periplasmic protein involved in the tonb-independent uptake of group A colicins" in subsystem Ton and Tol transport systems

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 (307 amino acids)

>HMPREF1078_RS06355 TolB family protein (Parabacteroides merdae CL09T00C40)
MKTCCMILLAAFTSLASAQQNDVTSILEVLDVTNGRRTVVKEFPYRVEAPNWTPDGQWLV
YNSGGKLYKLSPDSPGEPEMINTGFATRCNNDHVIAADGKQIAISHGTKEDGKSRIYTLP
MQGGTPRLITPIAPSYLHGWSPDGRQLAYCADRKGNYDIYVIPVEGGEERQLTTAEGLDD
GPEYSPCGEYIWFNSVRTGLMQVWRMKKDGSEQTQMTFDETRNSWFPHVSPDGKSVIFIT
YYKGDLEPGQHLPNKNVELRIMPATGGKPKTLVKLFGGQGTINVNSWAPDSKHIAFVSYR
LSSSSSK