SMTL ID : 6m9t.1

Crystal structure of EP3 receptor bound to misoprostol-FA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x J9P: (11alpha,12alpha,13E,16S)-11,16-dihydroxy-16-methyl-9-oxoprost-13-en-1-oic acid(Non-covalent)

J9P.1: 20 residues within 4Å: Chain A: P.67, M.70, G.114, T.118, T.119, V.122, Y.126, M.149, F.152, G.153, T.218, W.219, F.221, W.458, L.461, L.492, V.495, R.496, S.499, Q.502 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:M.70, A:V.122, A:F.152, A:W.219, A:F.221, A:W.458, A:L.461, A:L.492, A:V.495 Hydrogen bonds: A:Y.126, A:T.218, A:Q.502 Water bridges: A:S.499 Salt bridges: A:R.496

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

SO4.2: 7 residues within 4Å: Chain A: A.173, P.174, H.175, W.176, R.280, G.284, L.285 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.175, A:W.176, A:L.285, A:L.285 Salt bridges: A:R.280 SO4.3: 4 residues within 4Å: Chain A: T.414, P.415, N.416, R.417 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.416, A:N.416, A:R.417 SO4.4: 2 residues within 4Å: Chain A: Y.360, R.368 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.360, A:Y.360, A:R.368 SO4.5: 3 residues within 4Å: Chain A: M.82, G.105, W.106 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.105

1 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)

OLC.6: 8 residues within 4Å: Chain A: Q.446, A.449, L.504, V.508, L.512, R.513 Ligands: OLA.9, OLA.10 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.504, A:L.512 Hydrogen bonds: A:V.508, A:R.513

4 x OLA: OLEIC ACID(Non-covalent)(Non-functional Binders)

OLA.7: 3 residues within 4Å: Chain A: I.463, M.464, F.490 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.463, A:I.463, A:F.490, A:F.490 OLA.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) OLA.9: 6 residues within 4Å: Chain A: A.449, C.452, V.453, V.456, L.497 Ligands: OLC.6 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.453, A:V.456, A:L.497 OLA.10: 8 residues within 4Å: Chain A: F.66, M.70, T.73, I.493, R.496, L.500, L.504 Ligands: OLC.6 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.66, A:I.493, A:R.496, A:L.500, A:L.504 Salt bridges: A:R.496

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Audet, M. et al., Crystal structure of misoprostol bound to the labor inducer prostaglandin E2receptor. Nat. Chem. Biol. (2019)

Release Date

2018-12-05

Peptides

Prostaglandin E2 receptor EP3 subtype, Endolysin chimera: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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Prostaglandin E2 receptor EP3 subtype, Endolysin chimera