SMTL ID : 8zft.1

Crystal Structure of Human PPARgamma Ligand Binding Domain in Complex with T0070907 and SR1664

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

homo-dimer

Ligands

2 x EEY: 2-chloro-5-nitro-N-(pyridin-4-yl)benzamide(Non-covalent)(Covalent)

EEY.1: 12 residues within 4Å: Chain A: F.80, C.83, Q.84, R.86, S.87, I.124, L.128, F.161, M.162, H.247, Y.271 Ligands: 3JX.2 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.80, A:R.86, A:I.124, A:L.128, A:F.161 Hydrogen bonds: A:S.87 EEY.3: 14 residues within 4Å: Chain B: F.80, C.83, Q.84, R.86, S.87, A.90, H.121, I.124, Y.125, L.128, F.161, H.247, L.251 Ligands: 3JX.4 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:F.80, B:R.86, B:I.124, B:F.161, B:F.161 Hydrogen bonds: B:S.87

2 x 3JX: 4'-[(2,3-dimethyl-5-{[(1S)-1-(4-nitrophenyl)ethyl]carbamoyl}-1H-indol-1-yl)methyl]biphenyl-2-carboxylic acid(Non-covalent)

3JX.2: 13 residues within 4Å: Chain A: L.26, F.62, I.79, Q.81, G.82, F.85, R.86, L.131, L.138, I.139, S.140, E.141 Ligands: EEY.1 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.26, A:F.62, A:F.62, A:I.79, A:F.85, A:F.85, A:R.86, A:L.131, A:I.139 Hydrogen bonds: A:L.138, A:E.141 3JX.4: 16 residues within 4Å: Chain A: L.109 Chain B: L.26, F.62, R.78, I.79, C.83, F.85, R.86, L.131, L.138, I.139, S.140, E.141, G.142, Y.271 Ligands: EEY.3 11 PLIP interactions: 2 interactions with chain A, 9 interactions with chain B Hydrophobic interactions: A:L.109, A:L.109, B:F.62, B:F.62, B:I.79, B:F.85, B:F.85, B:R.86, B:L.131, B:I.139 Hydrogen bonds: B:L.138

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shang, J. et al., Unanticipated mechanisms of covalent inhibitor and synthetic ligand cobinding to PPAR gamma. Elife (2024)

Release Date

2024-08-07

Peptides

Peroxisome proliferator-activated receptor gamma: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Peroxisome proliferator-activated receptor gamma

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