Brand  (β version)

PDB ID: 6F8R

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Ligands
Code Name Style Show Link
CZK (2~{S})-1-[3-(3-cyclopentyloxy-4-methoxy-phenyl)pyrazol-1-yl]-3-morpholin-4-yl-propan-2-ol PoSSuM
EDO 1,2-ethanediol PoSSuM
MG Magnesium ion PoSSuM
ZN Zinc ion PoSSuM
Non-standard Residues
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Structure summary

Code : 6F8R   PDBj   RCSB PDB   PDBe
Header : HYDROLASE
Title : Crystal structure of the PDE4D catalytic domain in complex with GEBR-54
Release Data : 2018-05-16
Compound :
mol_id molecule chains synonym
1 cAMP-specific 3',5'-cyclic phosphodiesterase 4D A,B DPDE3,PDE43
ec: 3.1.4.53
Source :
mol_id organism_scientific organism_common expression_system
1 Homo sapiens  (taxid:9606) Human Escherichia coli BL21(DE3)  (taxid:469008)
gene: PDE4D, DPDE3
Authors : Prosdocimi, T., Donini, S., Parisini, E.
Keywords : PDE4, catalytic domain, inhibitor, GEBR, HYDROLASE
Exp. method : X-RAY DIFFRACTION ( 1.826 Å )
Citation :

Molecular Bases of PDE4D Inhibition by Memory-Enhancing GEBR Library Compounds.

Prosdocimi, T.,Mollica, L.,Donini, S.  et al.
(2018)  Biochemistry  57 : 2876 - 2888

PubMed: 29652483
DOI: 10.1021/acs.biochem.8b00288

Reaction

Chain : A, B
UniProt : Q08499 (PDE4D_HUMAN)
Reaction: EC: Evidence:
Physiological Direction:
3',5'-cyclic AMP + H2O = AMP + H(+) 3.1.4.53 PubMed:9371713
left-to-right
Cofactor: Evidence: Note:
Zn(2+) ECO:0000269 | PubMed:14609333
ECO:0000269 | PubMed:15260978
ECO:0000269 | PubMed:15576036
ECO:0000269 | PubMed:17582435
Binds 2 divalent metal cations per subunit. Site 1 may preferentially bind zinc ions.
Mn(2+) ECO:0000269 | PubMed:15260978
ECO:0000269 | PubMed:15576036
ECO:0000250 | UniProtKB:Q07343
Binds 2 divalent metal cations per subunit (PubMed:15260978, PubMed:15576036). Site 2 has a preference for magnesium and/or manganese ions (By similarity).