Protein Info for GFF4467 in Variovorax sp. SCN45

Annotation: UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase (EC 3.5.1.108)

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

Best Hits

Swiss-Prot: 97% identical to LPXC_VARPS: UDP-3-O-acyl-N-acetylglucosamine deacetylase (lpxC) from Variovorax paradoxus (strain S110)

KEGG orthology group: K02535, UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase [EC: 3.5.1.-] (inferred from 97% identity to vap:Vapar_0925)

MetaCyc: 50% identical to UDP-3-O-acyl-N-acetylglucosamine deacetylase (Escherichia coli K-12 substr. MG1655)
UDPACYLGLCNACDEACETYL-RXN [EC: 3.5.1.108]

Predicted SEED Role

"UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase (EC 3.5.1.108)" (EC 3.5.1.108)

MetaCyc Pathways

lipid IV_A biosynthesis (P. gingivalis) (9/9 steps found)
superpathway of (Kdo)₂-lipid A biosynthesis (14/17 steps found)
lipid IV_A biosynthesis (E. coli) (6/6 steps found)
lipid IV_A biosynthesis (H. pylori) (6/6 steps found)
lipid IV_A biosynthesis (P. putida) (6/6 steps found)
lipid IV_A biosynthesis (Vibrio cholerae serogroup O1 El Tor) (6/6 steps found)
lipid IV_A biosynthesis (generic) (6/6 steps found)
lipid IV_A biosynthesis (2,3-diamino-2,3-dideoxy-D-glucopyranose-containing) (5/6 steps found)
superpathway of Kdo₂-lipid A biosynthesis (14/25 steps found)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 3.5.1.-

Use Curated BLAST to search for 3.5.1.- or 3.5.1.108

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 (310 amino acids)

>GFF4467 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase (EC 3.5.1.108) (Variovorax sp. SCN45)
MPAVLQQRTLKSISRAVGVGLHSGQRVELTLRPAPADTGIVFRRVDLPEPVEIRMTAEAV
TDTRLASTVSTGGAKVQTVEHIMSACAGLGIDNLYIDITADEVPILDGSASSFVFLLQSA
GIALQKAPRRFIRVTRKVEVREGEGANEKWASLEPYHGFKLSFEIDFDHRVVNSTGQRVE
FDLGADSYSRDIARARTFGFTKEVEYMRSKGLALGGGLDNAIVMDDTKVLNEGGLRYDDE
FVKHKILDAMGDLYIIGKPLLAAYTAFRSGHALNNKLLRELLSHSDAYEVVTFEDEKRAP
RGFGEVARAW