SMTL ID : 4qk4.1

Crystal structure of human nuclear receptor sf-1 (nr5a1) bound to pip2 at 2.8 a resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.81 Å

Oligo State

hetero-1-1-mer

Ligands

1 x PIK: (2S)-3-{[(R)-hydroxy{[(1R,2R,3S,4R,5R,6S)-2,3,6-trihydroxy-4,5-bis(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dihexadecanoate(Non-covalent)

PIK.1: 20 residues within 4Å: Chain A: F.46, L.49, C.50, S.87, L.90, V.91, V.115, V.120, Q.123, A.124, G.125, L.128, L.131, A.135, L.213, A.217, Y.220, L.221, H.223, K.224 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:F.46, A:L.49, A:L.90, A:L.90, A:V.91, A:V.115, A:L.131, A:A.135, A:L.213, A:A.217, A:Y.220 Hydrogen bonds: A:Q.123, A:G.125, A:Y.220 Salt bridges: A:H.223, A:K.224

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 3 residues within 4Å: Chain A: S.59, D.93, R.97 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.97 Water bridges: A:D.93, A:D.93, A:D.93 EDO.3: 7 residues within 4Å: Chain A: Q.98, G.102, K.103, E.104, Q.136, V.139, L.143 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.98, A:K.103, A:Q.136 EDO.4: 3 residues within 4Å: Chain A: Y.222, L.240, Q.241 No protein-ligand interaction detected (PLIP) EDO.5: 4 residues within 4Å: Chain A: Q.141, L.205, C.206, E.209 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.141 EDO.6: 3 residues within 4Å: Chain A: V.208, E.209, A.212 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.209 Water bridges: A:R.134, A:E.209, A:E.209

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Blind, R.D. et al., The signaling phospholipid PIP3 creates a new interaction surface on the nuclear receptor SF-1. Proc.Natl.Acad.Sci.USA (2014)

Release Date

2014-07-30

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Steroidogenic factor 1

Peroxisome proliferator-activated receptor gamma coactivator 1-alpha

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