SMTL ID : 6nwk.1

Structure of the Ancestral Glucocorticoid Receptor 2 ligand binding domain in complex with dexamethasone and PGC1a coregulator fragment

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

hetero-1-1-mer

Ligands

1 x DEX: DEXAMETHASONE(Non-covalent)

DEX.1: 22 residues within 4Å: Chain A: M.32, L.35, N.36, L.38, G.39, Q.42, W.72, M.73, M.76, A.77, L.80, R.83, F.95, Q.114, M.118, L.204, F.207, C.208, T.211, V.219, F.221, L.225 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.35, A:W.72, A:M.76, A:Q.114, A:F.207 Hydrogen bonds: A:L.35, A:N.36, A:Q.42, A:R.83, A:Q.114, A:T.211 Water bridges: A:L.80

1 x FMT: FORMIC ACID(Non-functional Binders)

FMT.2: 3 residues within 4Å: Chain A: A.52, P.54, G.55 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.55

1 x ACE: ACETYL GROUP(Non-functional Binders)

ACE.3: 3 residues within 4Å: Chain A: G.55, R.57, N.58 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:R.57 Hydrogen bonds: A:R.57

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.4: 3 residues within 4Å: Chain A: Y.85, K.86, N.89 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.86 DMS.5: 11 residues within 4Å: Chain A: E.12, P.13, V.15, S.79, W.82, R.83, Y.132, Y.135, L.136, K.139 Ligands: GOL.6 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.12

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 10 residues within 4Å: Chain A: E.12, P.13, A.46, W.49, L.75, M.76, S.79, Y.135, K.139 Ligands: DMS.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.12, A:L.75, A:K.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, X. et al., First High-Resolution Crystal Structures of the Glucocorticoid Receptor Ligand-Binding Domain-Peroxisome Proliferator-ActivatedgammaCoactivator 1-alphaComplex with Endogenous and Synthetic Glucocorticoids. Mol.Pharmacol. (2019)

Release Date

2019-10-23

Peptides

glucocorticoid receptor: A
Peroxisome proliferator-activated receptor gamma coactivator 1-alpha: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

glucocorticoid receptor

Peroxisome proliferator-activated receptor gamma coactivator 1-alpha

Related Entries With Identical Sequence