SMTL ID : 5mmw.1

Crystal structure of the Retinoid X Receptor alpha in complex with synthetic honokiol derivative 6 and a fragment of the TIF2 co-activator.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

2 x LYS- ILE- LEU- HIS- ARG- LEU- LEU- GLN: LYS-ILE-LEU-HIS-ARG-LEU-LEU-GLN(Non-covalent)

LYS-ILE-LEU-HIS-ARG-LEU-LEU-GLN.1: 11 residues within 4Å: Chain A: F.49, V.52, K.56, L.66, Q.69, V.70, L.73, R.74, F.222, E.225, M.226 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:F.49, A:F.49, A:V.52, A:V.52, A:L.66, A:Q.69, A:V.70, A:V.70, A:R.74, A:F.222, A:F.222 Hydrogen bonds: A:K.56, A:E.225, A:E.225, A:E.225, A:E.225 LYS-ILE-LEU-HIS-ARG-LEU-LEU-GLN.3: 11 residues within 4Å: Chain B: F.49, V.52, K.56, L.66, Q.69, V.70, L.73, R.74, F.222, E.225, M.226 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:F.49, B:F.49, B:V.52, B:V.52, B:L.66, B:Q.69, B:V.70, B:V.70, B:R.74, B:F.222, B:F.222 Hydrogen bonds: B:K.56, B:E.225, B:E.225, B:E.225

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

SJZ.2: 20 residues within 4Å: Chain A: I.40, A.43, A.44, Q.47, N.78, L.81, I.82, F.85, R.88, L.98, A.99, V.104, A.109, V.114, I.117, F.118, C.204, H.207, L.208, F.211 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.40, A:I.40, A:A.44, A:L.81, A:I.82, A:F.85, A:F.85, A:V.114, A:I.117, A:F.118, A:F.118, A:L.208, A:F.211 Hydrogen bonds: A:A.99 Salt bridges: A:R.88 SJZ.4: 20 residues within 4Å: Chain B: I.40, A.43, A.44, Q.47, N.78, L.81, I.82, F.85, R.88, L.98, A.99, V.104, A.109, V.114, I.117, F.118, C.204, H.207, L.208, F.211 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:I.40, B:I.40, B:A.44, B:L.81, B:I.82, B:F.85, B:F.85, B:V.114, B:I.117, B:F.118, B:F.118, B:L.208, B:F.211 Hydrogen bonds: B:A.99 Salt bridges: B:R.88

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: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Retinoic acid receptor RXR-alpha

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