SMTL ID : 3g8n.1

Progesterone Receptor with bound Pyrrolidine 1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 6 residues within 4Å: Chain A: P.67, G.68, R.70, N.71 Ligands: SO4.2, SO4.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.68, A:N.71 Salt bridges: A:R.70 SO4.2: 6 residues within 4Å: Chain A: P.67, G.68, M.174, S.177, Y.178 Ligands: SO4.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:P.67, A:S.177, A:S.177, A:Y.178 SO4.3: 1 residues within 4Å: Ligands: SO4.1 No protein-ligand interaction detected (PLIP) SO4.4: 5 residues within 4Å: Chain A: Q.117, K.120, Y.125, S.126, L.129 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.117, A:Y.125 Water bridges: A:S.122, A:S.122

2 x GKK: 2-CHLORO-4-{[(3S)-1-METHYLPYRROLIDIN-3-YL][2-(TRIFLUOROMETHYL)BENZYL]AMINO}BENZONITRILE(Non-covalent)

GKK.5: 18 residues within 4Å: Chain A: L.48, N.49, L.51, Q.55, M.86, M.89, V.90, L.93, R.96, F.108, F.124, L.127, M.131, L.217, Y.220, C.221, F.235, M.239 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.48, A:F.108, A:F.124, A:L.127, A:Y.220 Hydrogen bonds: A:R.96 Water bridges: A:R.96 GKK.7: 19 residues within 4Å: Chain B: L.48, N.49, L.51, Q.55, M.86, M.89, V.90, L.93, R.96, F.108, F.124, L.127, M.131, L.217, Y.220, C.221, T.224, F.235, M.239 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:L.48, B:L.48, B:L.127, B:Y.220 Hydrogen bonds: B:Q.55, B:R.96 Water bridges: B:R.96 pi-Stacking: B:F.124

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 6 residues within 4Å: Chain A: Y.83, S.87, T.159, H.211, H.218, I.250 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.83, A:T.159 Water bridges: A:S.87, A:S.87 GOL.8: 7 residues within 4Å: Chain B: Y.83, S.87, T.159, H.211, H.218, I.250, P.257 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.83, B:S.87, B:S.87, B:H.211

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thompson, S.K. et al., Rational design of orally-active, pyrrolidine-based progesterone receptor partial agonists. Bioorg.Med.Chem.Lett. (2009)

Release Date

2010-02-16

Peptides

Progesterone receptor: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Progesterone receptor

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