Protein Info for ABID97_RS04770 in Variovorax sp. OAS795

Annotation: lipopolysaccharide transport periplasmic protein LptA

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 50 100 150 200 242 signal peptide" amino acids 1 to 39 (39 residues), see Phobius details TIGR03002: lipopolysaccharide transport periplasmic protein LptA" amino acids 38 to 197 (160 residues), 109.3 bits, see alignment E=7.1e-36 PF03968: LptD_N" amino acids 48 to 165 (118 residues), 71.7 bits, see alignment E=2.9e-24

Best Hits

KEGG orthology group: K09774, lipopolysaccharide export system protein LptA (inferred from 84% identity to vpe:Varpa_0482)

Predicted SEED Role

"LptA, protein essential for LPS transport across the periplasm" in subsystem KDO2-Lipid A biosynthesis

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 (242 amino acids)

>ABID97_RS04770 lipopolysaccharide transport periplasmic protein LptA (Variovorax sp. OAS795)
MTLHSYTHTPSLLRRIGRLARLNIGLLLLAGAASGALAETADRTKPMNIESDAMRYDDLK
QTSVFTGNVLVTKGTIIIRGARIDVRQDAEGYQYGVVTAAPGKRAYYKQKRNAPDEWIEG
ESEVIEYDSRADNVKFIRNAVMRRLLGATPNDESSGALIVYDQSNDTYTVNGSTVPPNTA
VNAPAGGGRVRTILTPKSATAAAPGAPAAPGQRAAPPAPQPAPGAGLRPSTTLGGSEGEG
RK