Protein Info for LRK55_RS04750 in Rhodanobacter denitrificans MT42

Annotation: outer membrane protein assembly factor BamD

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 50 100 150 200 250 277 signal peptide" amino acids 1 to 23 (23 residues), see Phobius details TIGR03302: outer membrane assembly lipoprotein YfiO" amino acids 8 to 254 (247 residues), 253.7 bits, see alignment E=8.6e-80 PF13512: TPR_18" amino acids 35 to 174 (140 residues), 113.1 bits, see alignment E=2e-36 PF13525: YfiO" amino acids 38 to 242 (205 residues), 207.2 bits, see alignment E=3.7e-65 PF13432: TPR_16" amino acids 41 to 106 (66 residues), 25.3 bits, see alignment E=2.7e-09 amino acids 78 to 123 (46 residues), 15.7 bits, see alignment 2.7e-06

Best Hits

Swiss-Prot: 40% identical to BAMD_NEIGO: Outer membrane protein assembly factor BamD (bamD) from Neisseria gonorrhoeae

KEGG orthology group: K05807, putative lipoprotein (inferred from 43% identity to xal:XALc_0694)

Predicted SEED Role

"Probable component of the lipoprotein assembly complex (forms a complex with YaeT, YfgL, and NlpB)"

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 (277 amino acids)

>LRK55_RS04750 outer membrane protein assembly factor BamD (Rhodanobacter denitrificans MT42)
MPKLPVLKVLVVLMLVVSMSACSMFKSKRETIDTMPLVALYDNAHASLQNADYAAATKAY
QRLIARFPSGEYNEQAQLEMAYAQYKDNQPDDALSTVNRFIKTYPANKHVDYAYYLRGLI
NFDRTSGVIERFINREGSQARRDQGYNLQSFDDFAELSRRFPDSAYTADARQRMIYLRNI
LAEHEINVAEFYLRNKAYVAAADRAQYVIEHYQQASQTGDALAILTRSYLALDQKTLADQ
SRQVLALNYPNHPYLSDAKWPHAPSMLRKMVPFSGHH