Protein Info for HMPREF1078_RS17610 in Parabacteroides merdae CL09T00C40

Annotation: PD40 domain-containing 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 50 100 150 200 250 300 350 400 450 475 signal peptide" amino acids 1 to 20 (20 residues), see Phobius details PF07676: PD40" amino acids 276 to 296 (21 residues), 21.8 bits, see alignment (E = 7.4e-09) amino acids 389 to 412 (24 residues), 18.6 bits, see alignment (E = 7.5e-08)

Best Hits

KEGG orthology group: None (inferred from 51% identity to bhl:Bache_0607)

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 (475 amino acids)

>HMPREF1078_RS17610 PD40 domain-containing protein (Parabacteroides merdae CL09T00C40)
MKQLLLSLLTFFLYIGCTENKVASKLGNTYPDIFPDYKGISIPINIAPLNFTVRNSSHIK
AVFSNNNQPLFSIEGKNKIDIPLKKWQHMLSDNTGKQIDISISVWNESYPEGIQYKSFPV
YITTDSIDPYIAYRLIEPGYESWHEMDIRQRALNCFKEDIIISSNMNEKGCVNCHSFCNY
SPTDFMFHARTSPGGTIIIKNNQPTKVQLSQLGSSKEGTYPHWHPSGKYIIFSTNTTRQS
FYSRNPNLIEVYDLESDLVLYDLVHNTVITDPRFNGPASFETFPAWAPDGKRLYYCTAPA
RQLPKRLKEIKYSICSVSFNPDNGSFGETIDTIYTAHNKSASFPRISPDNQYLLFTESDY
ATFPIWHKEADLKMISLQGSAPVDTDILNSTDVESYHSWSSNGRWIIFSSRRLDGLYTRF
FIAHLNENGKFSKPFLLPQKDPDENNLRMKSFNIPEFIKDKITITRSQLDHTVTD