2pz0 Summary

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Crystal structure of Glycerophosphodiester Phosphodiesterase (GDPD) from T. tengcongensis

The structure was published by Shi, L., Liu, J.F., An, X.M., and Liang, D.C., in 2008 in a paper entitled "Crystal structure of glycerophosphodiester phosphodiesterase (GDPD) from Thermoanaerobacter tengcongensis, a metal ion-dependent enzyme: insight into the catalytic mechanism." (abstract).

This crystal structure was determined using X-ray diffraction at a resolution of 1.91 Å and deposited in 2007.

The experimental data on which the structure is based was also deposited.

This PDB entry contains multiple copies of the structure of Glycerophosphoryl diester phosphodiesterase.

It also contains one or more heterogenic compounds (e.g., ligands, co-factors, ions, modified amino acids, etc.); see here for a complete list.

The molecule most likely forms homodimers.

The following tables show cross-reference information to other databases (to obtain a list of all PDB entries sharing the same property or classification, click on the magnifying glass icon):


Chain Name UniProt Name of source organism % of UniProt sequence present in the sample Residues in the sample molecules % of residues observed
A Glycerophosphoryl diester phosphodiesterase Q8RB32 (1-243) (Q8RB32_CALS4)search Caldanaerobacter subterraneus subsp. tengcongensis MB4search 100% 252 96%
B Glycerophosphoryl diester phosphodiesterase Q8RB32 (1-243) (Q8RB32_CALS4)search Caldanaerobacter subterraneus subsp. tengcongensis MB4search 100% 252 96%


This entry contains 1 unique UniProt protein:

UniProt accession Name Organism PDB
Q8RB32 (1 - 243) Glycerophosphoryl diester phosphodiesterase Caldanaerobacter subterraneus subsp. tengcongensis MB4

Chain Structural classification (CATH) Sequence family (Pfam)
A, B (Q8RB32) Phosphatidylinositol (PI) phosphodiesterasesearch PF03009: Glycerophosphoryl diester phosphodiesterase familysearch

Chain ID Biological process (GO) Molecular function (GO)
A, B (Q8RB32) glycerol metabolic processsearch lipid metabolic processsearch phosphoric diester hydrolase activitysearch glycerophosphodiester phosphodiesterase activitysearch metal ion bindingsearch

Chain InterPro annotation
A, B Glycerophosphoryl diester phosphodiesterasesearch PLC-like phosphodiesterase, TIM beta/alpha-barrel domainsearch Glycerophosphodiester phosphodiesterase domainsearch