Protein Info for HMPREF1078_RS03585 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 50 100 150 200 250 300 350 400 450 500 563 signal peptide" amino acids 1 to 21 (21 residues), see Phobius details PF14322: SusD-like_3" amino acids 68 to 212 (145 residues), 82.6 bits, see alignment E=4.5e-27 PF07980: SusD_RagB" amino acids 263 to 552 (290 residues), 178.7 bits, see alignment E=2.1e-56

Best Hits

Predicted SEED Role

No annotation

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 (563 amino acids)

>HMPREF1078_RS03585 RagB/SusD family nutrient uptake outer membrane protein (Parabacteroides merdae CL09T00C40)
MKKIFITCAAILALFSSCTSVLDKEDLSSISEDKVWVDKTLTTAFLNALYVSIPSWDTAA
ADATDEATGGGNWTQGTTTPDNMSDTKDSAPTWYWPYSDIRNCNIFIQNAQNPEVCTIDR
ELADRLTYEARFIRAYLYFEMVKRYGGVPLITIPQEMTDDLYVKRNSTKECFDFIIDELK
ACAEGLPDSHSAEDLGRVTKGAAKAFLGRVFLFRASPQFNPNNNNEHWQTAYNYNKETLN
YLIGQGHALYDDYGKLFLDEMNKEVIFAIRYENPTRTQKRDATVRPITFSMNNTGGNHPT
QEVIDRFPTIDGGTYTYADWEKEGKDIFALWENRDKRFYATIVYQGVTYFNTVMELNENA
QNDYAYGKNVGSKTGYYSRKAIDESLSVTDCQKSGTDYIDIRLAEVMLNYAEAAVEVGKT
NEAFDMLKQIRKRAGINETSSNPEMKGKVYGLNPNMNQTEMREAVREERFIELLFEQKRL
WDMRRWMIYDKLMNGQGKRHALVMNKQADNTYTTYLFDRDNTPMITNQNIYFLPMKRSEM
SNNPNLEQTKGWENGTFDPQAGL