Protein Info for HMPREF1078_RS10220 in Parabacteroides merdae CL09T00C40

Annotation: efflux RND transporter periplasmic adaptor subunit

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 50 100 150 200 250 300 331 transmembrane" amino acids 7 to 30 (24 residues), see Phobius details PF13533: Biotin_lipoyl_2" amino acids 47 to 90 (44 residues), 31.3 bits, see alignment 2.7e-11 PF13437: HlyD_3" amino acids 208 to 301 (94 residues), 29.4 bits, see alignment E=2.2e-10

Best Hits

Swiss-Prot: 38% identical to AN36_HELPY: 36 kDa antigen (HP_1488) from Helicobacter pylori (strain ATCC 700392 / 26695)

KEGG orthology group: K01993, HlyD family secretion protein (inferred from 82% identity to pdi:BDI_1534)

Predicted SEED Role

"FIG00896745: 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 (331 amino acids)

>HMPREF1078_RS10220 efflux RND transporter periplasmic adaptor subunit (Parabacteroides merdae CL09T00C40)
MDKSKKYLAISFIVVLIAVIILSFVGMFLLKDKPVILQGQIEATEIRISGKLPGRIDTFL
VEEGQNVKAGDTLVVINSPEALAKYQQVNALESIARFQNQKVDEGTRKQIIATVQQLWNK
SKSDLELAKTTYNRIEVLYRDSVVSSQRRDEVKALYDAAVAGERAAWNQYQMALDGAQIQ
DRESARSLVNAAKGTVEEVAALLQDARLTAPESGQISTIFPKRGELVGAGMPIMNLIVLD
DVHIVLNVREDRLPFFPMGGTFVADIPAIDKKNIEFKINYVSPLGSFATWKSTKQTGSYD
LRTFEVHALPVRKVEGLRPGMSVLVELTMDN