SMTL ID : 4jgv.1

Crystal Structure of Human Nur77 Ligand-binding Domain in Complex with THPN

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.01 Å

Oligo State

homo-dimer

Ligands

1 x T94: 1-(3,4,5-trihydroxyphenyl)nonan-1-one(Non-covalent)

T94.1: 11 residues within 4Å: Chain A: L.144, L.157, L.160, V.161, I.163, T.164, Q.179, L.206, L.207, K.209, L.210 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.144, A:L.157, A:V.161, A:L.206, A:K.209, A:L.210 Hydrogen bonds: A:T.164, A:T.164, A:T.164, A:Q.179 Water bridges: A:D.165

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: P.108, G.109, R.142 Ligands: GOL.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.142, A:R.142 Water bridges: A:H.145 GOL.3: 2 residues within 4Å: Chain A: D.132, D.135 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.135 Water bridges: A:R.123 GOL.4: 6 residues within 4Å: Chain A: K.107, P.108, G.109, E.110, H.145 Ligands: GOL.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.109, A:E.110 Water bridges: A:H.145 GOL.5: 4 residues within 4Å: Chain A: Q.222, R.223, Y.226 Chain B: Q.222 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.223, A:R.223, B:Q.222 Water bridges: A:Q.222 GOL.6: 3 residues within 4Å: Chain A: L.148, D.150, A.153 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.150, A:D.150, A:L.203, A:L.203 GOL.7: 7 residues within 4Å: Chain A: H.23, L.24, S.26, G.27, P.28, R.101, R.105 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.105, A:R.105 Water bridges: A:H.23 GOL.8: 7 residues within 4Å: Chain B: H.23, L.24, S.26, G.27, P.28, R.101, R.105 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.101, B:R.105 Water bridges: B:L.24, B:P.28

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, W. et al., Orphan nuclear receptor TR3 acts in autophagic cell death via mitochondrial signaling pathway. Nat.Chem.Biol. (2014)

Release Date

2013-12-18

Peptides

Nuclear receptor subfamily 4 group A member 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nuclear receptor subfamily 4 group A member 1