SMTL ID : 8fkf.1

Crystal structure of PPARgamma ligand-binding domain in complex with N-CoR peptide and inverse agonist SR36706

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.82 Å

Oligo State

hetero-1-1-mer

Ligands

1 x Y5X: 2-chloro-N-(5-fluoropyridin-3-yl)-5-nitrobenzamide(Covalent)

Y5X.1: 14 residues within 4Å: Chain A: I.80, F.81, C.84, Q.85, H.122, Y.126, F.162, M.163, K.166, V.245, H.248, Y.272, L.275, Y.276 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:I.80, A:F.81, A:F.81 Hydrogen bonds: A:Q.85, A:Y.276, A:Y.276 pi-Stacking: A:H.248, A:Y.276

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 2 residues within 4Å: Chain A: N.134, K.135 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.135 Water bridges: A:R.33 EDO.3: 6 residues within 4Å: Chain A: L.27, T.28, K.29, M.128, S.131, L.132 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.131 Water bridges: A:Y.21, A:Y.21 EDO.4: 3 residues within 4Å: Chain A: N.134, D.136, F.146 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.134, A:D.136 Water bridges: A:D.136, A:D.136 EDO.5: 3 residues within 4Å: Chain A: Y.119, R.242, V.245 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 6 residues within 4Å: Chain A: M.51, R.156, S.263, L.264, H.265, L.268 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.156, A:S.263, A:H.265

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

MacTavish, B.S. et al., Crystal structure of PPARgamma ligand-binding domain in complex with N-CoR peptide and SR36706. To Be Published

Release Date

2024-04-17

Peptides

Peroxisome proliferator-activated receptor gamma: A
Nuclear receptor corepressor 1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

Peroxisome proliferator-activated receptor gamma

Nuclear receptor corepressor 1

Related Entries With Identical Sequence