SMTL ID : 5mk4.1

Crystal structure of the Retinoid X Receptor alpha in complex with synthetic honokiol derivative 7 and a fragment of the TIF2 co-activator.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-2-2-mer

Ligands

2 x I5W: (~{E})-3-[3-(2-methyl-5-phenyl-phenyl)-4-oxidanyl-phenyl]prop-2-enoic acid(Non-covalent)

I5W.1: 22 residues within 4Å: Chain A: I.40, A.43, A.44, Q.47, W.77, N.78, L.81, I.82, F.85, R.88, I.96, L.98, A.99, A.109, V.114, I.117, F.118, V.121, C.204, H.207, L.208, F.211 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:I.40, A:I.40, A:A.43, A:A.44, A:L.81, A:F.85, A:F.85, A:F.85, A:I.96, A:V.114, A:V.114, A:I.117, A:F.118 Hydrogen bonds: A:A.99 Water bridges: A:F.85 Salt bridges: A:R.88 I5W.3: 21 residues within 4Å: Chain C: I.40, A.43, A.44, Q.47, W.77, N.78, L.81, F.85, R.88, I.96, L.98, A.99, A.109, V.114, I.117, F.118, V.121, C.204, H.207, L.208, F.211 17 PLIP interactions: 17 interactions with chain C Hydrophobic interactions: C:I.40, C:I.40, C:A.44, C:L.81, C:F.85, C:F.85, C:F.85, C:I.96, C:V.114, C:I.117, C:F.118, C:V.121, C:L.208 Hydrogen bonds: C:N.78, C:A.99 Water bridges: C:F.85 Salt bridges: C:R.88

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 3 residues within 4Å: Chain A: R.165 Chain C: L.192, R.193 Ligand excluded by PLIP CL.4: 3 residues within 4Å: Chain A: L.192, R.193 Chain C: R.165 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Scheepstra, M. et al., Ligand Dependent Switch from RXR Homo- to RXR-NURR1 Heterodimerization. ACS Chem Neurosci (2017)

Release Date

2017-11-08

Peptides

Retinoic acid receptor RXR-alpha: AC
Nuclear receptor coactivator 2: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

Retinoic acid receptor RXR-alpha

Nuclear receptor coactivator 2

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