SMTL ID : 8zfs.1

Crystal Structure of Human PPARgamma Ligand Binding Domain in Complex with T0070907 and MRL24

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.56 Å

Oligo State

homo-dimer

Ligands

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

EEY.1: 15 residues within 4Å: Chain A: A.76, I.79, F.80, C.83, Q.84, S.87, L.154, F.158, F.161, M.162, H.247, L.251, L.267, Y.271 Ligands: 241.2 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.79, A:F.80, A:F.80, A:F.161, A:L.251 Hydrogen bonds: A:Y.271 pi-Stacking: A:H.247 EEY.3: 12 residues within 4Å: Chain B: A.76, F.80, C.83, Q.84, S.87, L.154, F.158, F.161, M.162, H.247, L.251 Ligands: 241.4 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:F.80, B:F.80, B:Q.84, B:F.161, B:L.251 Hydrogen bonds: B:F.80

2 x 241: (2S)-2-(3-{[1-(4-METHOXYBENZOYL)-2-METHYL-5-(TRIFLUOROMETHOXY)-1H-INDOL-3-YL]METHYL}PHENOXY)PROPANOIC ACID(Non-covalent)

241.2: 17 residues within 4Å: Chain A: I.79, C.83, R.86, S.87, A.90, I.123, I.124, Y.125, M.127, L.128, L.131, L.138, I.139, S.140, M.162, H.247 Ligands: EEY.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.79, A:A.90, A:M.127, A:L.128, A:L.131, A:I.139 Hydrogen bonds: A:S.140 241.4: 20 residues within 4Å: Chain B: F.24, F.62, I.79, G.82, C.83, R.86, S.87, A.90, E.93, I.124, Y.125, M.127, L.128, L.131, L.138, I.139, S.140, M.146, H.247 Ligands: EEY.3 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:F.62, B:I.79, B:R.86, B:A.90, B:I.124, B:L.128, B:L.131, B:I.139, B:I.139 Hydrogen bonds: B:S.140

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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