Protein Info for GFF688 in Xanthobacter sp. DMC5

Annotation: Endolytic peptidoglycan transglycosylase RlpA

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 50 100 150 200 250 286 signal peptide" amino acids 15 to 15 (1 residues), see Phobius details PF03330: DPBB_1" amino acids 90 to 179 (90 residues), 84 bits, see alignment E=3.5e-28 TIGR00413: rare lipoprotein A" amino acids 92 to 185 (94 residues), 137.9 bits, see alignment E=2.2e-44

Best Hits

KEGG orthology group: K03642, rare lipoprotein A (inferred from 73% identity to xau:Xaut_4323)

Predicted SEED Role

"Rare lipoprotein A precursor" in subsystem Peptidoglycan 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 (286 amino acids)

>GFF688 Endolytic peptidoglycan transglycosylase RlpA (Xanthobacter sp. DMC5)
MRAVTGAGAAPSIRGVRTVAILSSLIAIAGCGSVESLGSKIDPIWGVSTSPRVIAEGEQV
PRGGGSYKVGKPYTIGGRTYVPAENPNYMAEGTASWYGKDFHGRKTANGEIFDMGSISAA
HKTLPMPSYVRVTNLSNDRSIVVRINNRGPYVGDRLIDVSYKTAELLGFAQRGMTKVRVE
YLGRAPLDDDDDIKLASTLRTDGRPADLIEGSPVRVASAKPFVPEGPPLRRVAASAPPSD
EAPVPPSRPYDLGQTGGSGQVVASAGWSQGAAPVSGLGFAGVPGER