Protein Info for b1105 in Escherichia coli BW25113

Name: ycfM
Annotation: predicted outer membrane lipoprotein (NCBI)

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 50 100 150 213 signal peptide" amino acids 1 to 23 (23 residues), see Phobius details TIGR02722: uncharacterized lipoprotein" amino acids 6 to 212 (207 residues), 217.8 bits, see alignment E=6.4e-69 PF13036: LpoB" amino acids 73 to 209 (137 residues), 125.4 bits, see alignment E=9.2e-41

Best Hits

Swiss-Prot: 100% identical to LPOB_SHISS: Penicillin-binding protein activator LpoB (lpoB) from Shigella sonnei (strain Ss046)

KEGG orthology group: K07337, hypothetical protein (inferred from 100% identity to eco:b1105)

MetaCyc: 100% identical to outer membrane lipoprotein - activator of MrcB activity (Escherichia coli K-12 substr. MG1655)

Predicted SEED Role

"Lipoprotein YcfM, part of a salvage pathway of unknown substrate"

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

See P0AB38 at UniProt or InterPro

Protein Sequence (213 amino acids)

>b1105 predicted outer membrane lipoprotein (NCBI) (Escherichia coli BW25113)
MTKMSRYALITALAMFLAGCVGQREPAPVEEVKPAPEQPAEPQQPVPTVPSVPTIPQQPG
PIEHEDQTAPPAPHIRHYDWNGAMQPMVSKMLGADGVTAGSVLLVDSVNNRTNGSLNAAE
ATETLRNALANNGKFTLVSAQQLSMAKQQLGLSPQDSLGTRSKAIGIARNVGAHYVLYSS
ASGNVNAPTLQMQLMLVQTGEIIWSGKGAVSQQ