Protein Info for HMPREF1078_RS18125 in Parabacteroides merdae CL09T00C40

Annotation: LicD family 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 50 100 150 200 263 transmembrane" amino acids 167 to 188 (22 residues), see Phobius details PF04991: LicD" amino acids 32 to 142 (111 residues), 123 bits, see alignment E=1.1e-39

Best Hits

Predicted SEED Role

"Lipopolysaccharide cholinephosphotransferase LicD1 (EC 2.7.8.-)" in subsystem Phosphorylcholine incorporation in LPS (EC 2.7.8.-)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.7.8.-

Use Curated BLAST to search for 2.7.8.-

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 (263 amino acids)

>HMPREF1078_RS18125 LicD family protein (Parabacteroides merdae CL09T00C40)
MDGFNRFNPEGSVLRLHQMKMLRILEFVDRVCRKHGIRYWLSSGTLLGAVRHGGFIPWDD
DLDIEMLYRDYKRLMEVLPFELPSNLVLQTMHTDSNYVAPYAKLRETDSYISEVNNIGRN
YKYNGVYIDIFYIEPVNYRMAWIASKFHGYIYRLSYLKNDRLGIKKGVMRCLLFFLTYIL
YPCIRMIVKLSHTKEYRLGLGSGFLGVRLLDNIFPLSEVSFEGKIFPAPANTDGYLSYLY
GDYMVLPDLSKITYHVNNVDIKE