5OHJ: Human phosphodiesterase 4B catalytic domain

Human phosphodiesterase 4B catalytic domain in complex with a pyrrolidinyl inhibitor. Determined by X-ray diffraction at 1.6 Å resolution. Released 13 Dec 2017.

Method

X-ray diffraction

Resolution

1.6 Å

Organism

Homo sapiens

Chains

2

Atoms

5,699

Mol. weight

98.52 kDa

Ligands

ZN, MG, 9VE

Released

13 Dec 2017

Explore 5OHJ in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5OHJ contains 49 α-helices and 4 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 24 helices, 2 β-strands

Molecules and chains

>5OHJ_1 cAMP-specific 3',5'-cyclic phosphodiesterase 4B (chains A, B)
MSVSEMASNKFKRMLNRELTHLSEMSRSGNQVSEYISNTFLDKQNDVEIPKVTAEEAPQP
MTQISGVKKLMHSSSLNNTSISRFGVNTENEDHLAKELEDLNKWGLNIFNVAGYSHNRPL
TCIMYAIFQERDLLKTFRISSDTFITYMMTLEDHYHSDVAYHNSLHAADVAQSTHVLLST
PALDAVFTDLEILAAIFAAAIHDVDHPGVSNQFLINTNSELALMYNDESVLENHHLAVGF
KLLQEEHCDIFMNLTKKQRQTLRKMVIDMVLATDMSKHMSLLADLKTMVETKKVTSSGVL
LLDNYTDRIQVLRNMVHCADLSNPTKSLELYRQWTDRIMEEFFQQGDKERERGMEISPMC
DKHTASVEKSQVGFIDYIVHPLWETWADLVQPDAQDILDTLEDNRNWYQSMIPQSHHHHH
H

Ligands and cofactors

Primary citation

Discovery and Optimization of Thiazolidinyl and Pyrrolidinyl Derivatives as Inhaled PDE4 Inhibitors for Respiratory Diseases. Carzaniga, L., Amari, G., Rizzi, A. et al. J Med Chem (2017) 60:10026-10046. DOI 10.1021/acs.jmedchem.7b01044 · PubMed

Related structures

Other PDB entries of the same protein (UniProt Q07343 (AlphaFold model), which also has an AlphaFold model), best resolution first:

• 4KP6 1.5 Å, Crystal structure of human phosphodiesterase 4B (PDE4B) in complex with a…
• 2CHM 1.6 Å, Crystal structure of N2 substituted pyrazolo pyrimidinones - a flipped binding mode in…
• 3FRG 1.7 Å, Catalytic Domain of Human Phosphodiesterase 4B2B in Complex with a Quinoline Inhibitor
• 6BOJ 1.7 Å, Crystal Structure of the PDE4D Catalytic Domain and UCR2 Regulatory Helix with BPN5004
• 3D3P 1.75 Å, Crystal structure of PDE4B catalytic domain in complex with a pyrazolopyridine inhibitor
• 3GWT 1.75 Å, Catalytic domain of human phosphodiesterase 4B2B in complex with a quinoline inhibitor
• 1F0J 1.77 Å, Catalytic domain of human phosphodiesterase 4B2B
• 5K6J 1.86 Å, Human Phospodiesterase 4B in complex with pyridyloxy-benzoxaborole based inhibitor
• 8OEG 1.89 Å, PDE4B bound to MAPI compound 92a
• 4MYQ 1.9 Å, Selective Inhibition of the Catalytic Domain Of Human Phosphodiesterase 4B With A-33
• 1XM6 1.92 Å, Catalytic Domain Of Human Phosphodiesterase 4B In Complex With (R)-Mesopram
• 2QYL 1.95 Å, Crystal structure of PDE4B2B in complex with inhibitor NPV

Browse structure collections

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