SMTL ID : 8hhp.1

Crystal structure of PPARg-LBD complexed with three partial agonists, one nTZDpa and two LT175

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

monomer

Ligands

1 x NZA: 5-CHLORO-1-(4-CHLOROBENZYL)-3-(PHENYLTHIO)-1H-INDOLE-2-CARBOXYLIC ACID(Non-covalent)

NZA.1: 14 residues within 4Å: Chain A: I.80, F.81, G.83, C.84, R.87, L.132, L.139, I.140, S.141, M.147, L.152, M.163 Ligands: LRG.2, LRG.3 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:I.80, A:R.87, A:L.132, A:I.140, A:I.140 Hydrogen bonds: A:S.141 Water bridges: A:E.142 Salt bridges: A:R.87

2 x LRG: (2S)-2-(biphenyl-4-yloxy)-3-phenylpropanoic acid(Non-covalent)

LRG.2: 9 residues within 4Å: Chain A: F.25, L.27, I.35, R.87, A.91, M.128, L.132, E.142 Ligands: NZA.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.25, A:L.27, A:I.35, A:A.91, A:L.132, A:E.142 Salt bridges: A:R.87 LRG.3: 19 residues within 4Å: Chain A: F.81, Q.82, C.84, Q.85, S.88, H.122, Y.126, L.129, F.162, M.163, H.248, L.252, I.255, M.262, S.263, L.264, L.268, Y.272 Ligands: NZA.1 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:F.81, A:Q.82, A:Q.85, A:Y.126, A:L.129, A:F.162, A:L.252, A:I.255, A:M.262, A:L.264, A:L.268 Hydrogen bonds: A:S.88, A:Y.272 Salt bridges: A:H.122, A:H.248

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kojima, H. et al., Covalent Modifier Discovery Using Hydrogen/Deuterium Exchange-Mass Spectrometry. J.Med.Chem. (2023)

Release Date

2023-11-22

Peptides

Peroxisome proliferator-activated receptor gamma: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Peroxisome proliferator-activated receptor gamma

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