SMTL ID : 5mkj.1

Crystal structure of the Retinoid X Receptor alpha in complex with synthetic honokiol derivative 9 and a fragment of the TIF2 co-activator.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

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

LYS-ILE-LEU-HIS-ARG-LEU-LEU-GLN-ASP.1: 11 residues within 4Å: Chain A: F.49, V.52, K.56, L.66, Q.69, V.70, L.73, R.74, T.221, F.222, E.225 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.49, A:V.52, A:V.70, A:V.70, A:R.74, A:F.222 Hydrogen bonds: A:K.56, A:E.225, A:E.225, A:E.225 Salt bridges: A:K.56 LYS-ILE-LEU-HIS-ARG-LEU-LEU-GLN-ASP.3: 11 residues within 4Å: Chain B: F.49, V.52, K.56, L.66, Q.69, V.70, L.73, R.74, T.221, F.222, E.225 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:F.49, B:V.52, B:V.70, B:V.70, B:R.74, B:F.222 Hydrogen bonds: B:K.56, B:E.225, B:E.225 Water bridges: B:E.225 Salt bridges: B:K.56

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

4CU.2: 22 residues within 4Å: Chain A: I.40, C.41, A.43, A.44, Q.47, W.77, N.78, L.81, I.82, F.85, R.88, I.96, L.98, A.99, I.117, F.118, V.121, C.204, H.207, L.208, F.211, L.223 13 PLIP interactions: 13 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:F.118, A:V.121, A:L.208 Hydrogen bonds: A:N.78, A:A.99 Salt bridges: A:R.88 4CU.4: 22 residues within 4Å: Chain B: I.40, C.41, A.43, A.44, Q.47, W.77, N.78, L.81, I.82, F.85, R.88, I.96, L.98, A.99, I.117, F.118, V.121, C.204, H.207, L.208, F.211, L.223 13 PLIP interactions: 13 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:F.118, B:V.121, B:L.208 Hydrogen bonds: B:N.78, 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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