SMTL ID : 6ssq.1

Crystal structure of RARbeta LBD in complex with LG 100754

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-2-2-mer

Ligands

2 x 754: (2E,4E,6Z)-3-methyl-7-(5,5,8,8-tetramethyl-3-propoxy-5,6,7,8-tetrahydronaphthalen-2-yl)octa-2,4,6-trienoic acid(Non-covalent)

754.1: 21 residues within 4Å: Chain A: F.45, F.74, L.77, A.78, C.81, L.112, L.115, I.116, I.119, R.122, F.132, S.133, G.147, F.148, L.151, V.155, I.233, G.237, V.241, L.244, I.256 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:F.74, A:F.74, A:A.78, A:L.112, A:L.115, A:L.115, A:I.116, A:I.119, A:F.132, A:F.148, A:L.151, A:V.155, A:I.233, A:L.244, A:I.256 Hydrogen bonds: A:S.133 Salt bridges: A:R.122 pi-Stacking: A:F.74 754.4: 21 residues within 4Å: Chain B: F.45, W.71, F.74, L.77, C.81, I.82, L.112, L.115, I.116, I.119, R.122, F.132, S.133, F.148, L.151, G.237, R.240, V.241, L.244, M.259, M.260 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:W.71, B:F.74, B:F.74, B:I.82, B:L.112, B:L.115, B:L.115, B:L.115, B:I.116, B:I.119, B:F.132, B:F.148, B:F.148, B:L.151, B:R.240, B:V.241, B:L.244, B:M.259 Hydrogen bonds: B:S.133 Salt bridges: B:R.122 pi-Stacking: B:F.74

1 x FLC: CITRATE ANION(Non-covalent)

FLC.2: 4 residues within 4Å: Chain A: E.189, E.190, P.191, T.192 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.192, A:T.192

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: T.56, S.58, G.69, L.70 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.69 Water bridges: A:G.69

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

le Maire, A. et al., Regulation of RXR-RAR Heterodimers by RXR- and RAR-Specific Ligands and Their Combinations. Cells (2019)

Release Date

2019-11-20

Peptides

Retinoic acid receptor beta: AB
Nuclear receptor coactivator 1: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
F

D
G

Retinoic acid receptor beta

Nuclear receptor coactivator 1

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