SMTL ID : 3jwr.1 (1 other biounit)

Crystal structure of chimeric PDE5/PDE6 catalytic domain complexed with 3-isobutyl-1-methylxanthine (IBMX) and PDE6 gamma-subunit inhibitory peptide 70-87.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.99 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.83, H.87, H.123, D.124, D.234 Ligands: MG.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.87, A:H.123, A:D.124, A:D.234

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 6 residues within 4Å: Chain A: H.123, D.124, E.152, H.155, T.193 Ligands: ZN.1 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.124, A:E.152, H2O.1

3 x IBM: 3-ISOBUTYL-1-METHYLXANTHINE(Non-covalent)

IBM.3: 8 residues within 4Å: Chain A: Y.82, H.83, L.235, A.237, I.238, F.256, Q.287, F.290 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.256 Hydrogen bonds: A:Q.287 pi-Stacking: A:F.290 IBM.4: 8 residues within 4Å: Chain A: L.163, N.164, Q.169, L.171, S.172, L.174, I.176, Y.179 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.176 pi-Stacking: A:Y.179, A:Y.179 IBM.5: 3 residues within 4Å: Chain A: F.156, D.157, L.160 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.160 Hydrogen bonds: A:D.157

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Barren, B. et al., Structural basis of phosphodiesterase 6 inhibition by the C-terminal region of the gamma-subunit. Embo J. (2009)

Release Date

2009-10-13

Peptides

cGMP-specific 3',5'-cyclic phosphodiesterase catalytic domain, Cone cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha chimera: A
Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit gamma: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

cGMP-specific 3',5'-cyclic phosphodiesterase catalytic domain, Cone cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha chimera

Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit gamma

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