Protein Info for ABID97_RS07210 in Variovorax sp. OAS795

Annotation: glycerophosphodiester phosphodiesterase

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: 52% identical to UGPQ_ECOLI: Glycerophosphodiester phosphodiesterase, cytoplasmic (ugpQ) from Escherichia coli (strain K12)

KEGG orthology group: K01126, glycerophosphoryl diester phosphodiesterase [EC: 3.1.4.46] (inferred from 93% identity to vap:Vapar_4138)

MetaCyc: 52% identical to glycerophosphodiester phosphodiesterase UgpQ (Escherichia coli K-12 substr. MG1655)
Glycerophosphocholine phosphodiesterase. [EC: 3.1.4.2, 3.1.4.46]; 3.1.4.46 [EC: 3.1.4.2, 3.1.4.46]; 3.1.4.46 [EC: 3.1.4.2, 3.1.4.46]; 3.1.4.46 [EC: 3.1.4.2, 3.1.4.46]

Predicted SEED Role

"Glycerophosphoryl diester phosphodiesterase (EC 3.1.4.46)" in subsystem Glycerol and Glycerol-3-phosphate Uptake and Utilization (EC 3.1.4.46)

MetaCyc Pathways

glycerophosphodiester degradation (2/2 steps found)
glycerol and glycerophosphodiester degradation (3/4 steps found)
phosphatidylcholine resynthesis via glycerophosphocholine (1/2 steps found)
phospholipid remodeling (phosphatidylethanolamine, yeast) (2/4 steps found)
anandamide biosynthesis I (4/12 steps found)

KEGG Metabolic Maps

Glycerophospholipid metabolism

Isozymes

Compare fitness of predicted isozymes for: 3.1.4.46

Use Curated BLAST to search for 3.1.4.2 or 3.1.4.46

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 (248 amino acids)

>ABID97_RS07210 glycerophosphodiester phosphodiesterase (Variovorax sp. OAS795)
MAALKPWPYPRWIAHRGAGKLAPENTLAAFRLGAAHGYRMFECDAKLSADGVAFLMHDAT
LDRTTSGQGTGGTQPWSALSQLDAGSWHSRAFAGEPLATLENLARYCLANGHLLNIEIKP
TPGTERETGEAVARLAARLWQGAATPPLLTSFKAESLAGAQAVQPELPRGLLLDTLQDGW
LAAATGLDCAAVVCNHALWNAATVAQVHDAGMRALSYTVNDEWAAERLIVLGTDGIITDR
VDLFSPAG