SMTL ID : 4jvb.1

Crystal structure of PDE6D in complex with the inhibitor rac-2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

1 x 1M0: 1-benzyl-2-(4-{[(2R)-2-(2-phenyl-1H-benzimidazol-1-yl)pent-4-en-1-yl]oxy}phenyl)-1H-benzimidazole(Non-covalent)

1M0.1: 23 residues within 4Å: Chain A: L.19, M.22, L.24, W.34, L.40, A.49, V.51, I.55, L.56, V.61, R.63, L.65, Q.80, V.82, E.90, I.111, A.113, M.119, I.131, T.133, V.147, L.149, Y.151 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:L.19, A:L.24, A:L.40, A:L.40, A:A.49, A:V.51, A:V.51, A:I.55, A:I.55, A:L.56, A:V.61, A:L.65, A:V.82, A:I.111, A:A.113, A:I.131, A:I.131, A:V.147, A:L.149 Hydrogen bonds: A:R.63, A:Q.80 pi-Stacking: A:W.34

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zimmermann, G. et al., Small molecule inhibition of the KRAS PDEd interaction impairs oncogenic KRAS signalling. Nature (2013)

Release Date

2013-05-22

Peptides

Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

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

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