SMTL ID : 6l6k.1

Crystal structure of dimeric RXRalpha-LBD complexed with partial agonist CBt-PMN and SRC1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-2-2-mer

Ligands

2 x 9HF: 1-(3,5,5,8,8-pentamethyl-6,7-dihydronaphthalen-2-yl)benzotriazole-5-carboxylic acid(Non-covalent)

9HF.1: 17 residues within 4Å: Chain A: I.49, A.52, A.53, Q.56, N.87, L.90, F.94, R.97, I.105, L.107, A.108, I.126, V.130, C.213, H.216, L.217, F.220 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.49, A:A.53, A:L.90, A:F.94, A:F.94, A:F.94, A:I.105, A:L.107, A:I.126, A:V.130, A:H.216, A:L.217 Hydrogen bonds: A:A.108 Water bridges: A:F.94 Salt bridges: A:R.97 9HF.3: 17 residues within 4Å: Chain C: I.49, A.52, A.53, Q.56, N.87, L.90, F.94, R.97, I.105, L.107, A.108, I.126, V.130, C.213, H.216, L.217, F.220 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:I.49, C:A.53, C:L.90, C:F.94, C:F.94, C:F.94, C:I.105, C:L.107, C:I.126, C:V.130, C:H.216, C:L.217 Hydrogen bonds: C:A.108 Water bridges: C:F.94 Salt bridges: C:R.97

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 3 residues within 4Å: Chain A: E.215 Chain C: E.215 Ligands: CA.4 5 PLIP interactions: 1 interactions with chain C, 4 Ligand-Water interactions Metal complexes: C:E.215, H2O.5, H2O.6, H2O.14, H2O.14 CA.4: 3 residues within 4Å: Chain A: E.215 Chain C: E.215 Ligands: CA.2 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:E.215, H2O.6, H2O.6, H2O.13, H2O.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shimizu, K. et al., Crystal structure of dimeric RXRalpha-LBD complexed with partial agonist CBt-PMN and SRC1. To Be Published

Release Date

2020-11-04

Peptides

Retinoic acid receptor RXR-alpha: AC
Nuclear receptor coactivator 1: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

Retinoic acid receptor RXR-alpha

Nuclear receptor coactivator 1

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