SMTL ID : 6d27.1

Crystal structure of the prostaglandin D2 receptor CRTH2 with CAY10471

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.74 Å

Oligo State

monomer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: R.320, Q.324, R.326 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.324 Salt bridges: A:R.320, A:R.326 SO4.2: 8 residues within 4Å: Chain A: Q.141, M.250, L.251, R.349, W.359, A.361, Y.362, R.363 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Q.141, A:Q.141, A:L.251, A:Y.362, A:R.363 Salt bridges: A:R.349, A:R.363 SO4.3: 6 residues within 4Å: Chain A: T.145, V.146, T.343, P.344, N.345, R.346 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.146, A:N.345, A:N.345, A:R.346 SO4.4: 6 residues within 4Å: Chain A: T.65, V.66, V.67, Q.133, R.144, R.368 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:V.66, A:V.67, A:Q.133 Salt bridges: A:R.144, A:R.368 SO4.5: 4 residues within 4Å: Chain A: M.62, R.63, D.435, K.439 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.63, A:R.63, A:D.435 Water bridges: A:R.368 Salt bridges: A:R.63, A:K.439 SO4.6: 5 residues within 4Å: Chain A: R.136, R.233, G.256, G.257, K.266 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.136, A:R.233, A:G.256 Salt bridges: A:K.266 SO4.7: 2 residues within 4Å: Chain A: A.274, R.277 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.277

1 x FT4: [(3R)-3-{[(4-fluorophenyl)sulfonyl](methyl)amino}-1,2,3,4-tetrahydro-9H-carbazol-9-yl]acetic acid(Non-covalent)

FT4.8: 11 residues within 4Å: Chain A: M.18, F.112, F.113, R.171, Y.184, Y.185, Y.387, W.408, L.411, T.415 Ligands: PGO.16 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.112, A:Y.184 Hydrogen bonds: A:Y.185, A:Y.387 Salt bridges: A:R.171, A:K.211 pi-Stacking: A:F.112, A:Y.184 pi-Cation interactions: A:R.171

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.9: 7 residues within 4Å: Chain A: F.315, T.316, N.317, S.318, N.333, S.337, R.338 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.317, A:N.317, A:S.318, A:S.318, A:N.333

2 x OLA: OLEIC ACID(Non-covalent)

OLA.10: 1 residues within 4Å: Chain A: F.420 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.420 OLA.11: 5 residues within 4Å: Chain A: G.52, L.55, L.72, H.73, H.150 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.73, A:H.150

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.12: 2 residues within 4Å: Chain A: D.129, R.144 No protein-ligand interaction detected (PLIP) PGE.13: 3 residues within 4Å: Chain A: E.249, M.250, L.251 No protein-ligand interaction detected (PLIP)

4 x PGO: S-1,2-PROPANEDIOL(Non-covalent)

PGO.14: 5 residues within 4Å: Chain A: R.371, C.433, P.434, D.435, R.438 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.371, A:D.435, A:R.438 PGO.15: 4 residues within 4Å: Chain A: F.121, S.124, V.218, I.222 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.218 PGO.16: 3 residues within 4Å: Chain A: R.176, R.180 Ligands: FT4.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.176, A:R.180 PGO.17: 4 residues within 4Å: Chain A: G.41, L.45, P.86, T.89 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.45 Hydrogen bonds: A:T.89

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.18: 3 residues within 4Å: Chain A: S.110, T.164, F.168 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.164

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, L. et al., Structures of the Human PGD2Receptor CRTH2 Reveal Novel Mechanisms for Ligand Recognition. Mol. Cell (2018)

Release Date

2018-10-03

Peptides

Prostaglandin D2 receptor 2, 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 D2 receptor 2, Endolysin chimera

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