SMTL ID : 6d26.1

Crystal structure of the prostaglandin D2 receptor CRTH2 with fevipiprant

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

monomer

Ligands

1 x FSY: fevipiprant(Non-covalent)

FSY.1: 19 residues within 4Å: Chain A: M.18, F.88, F.91, H.96, F.112, F.113, R.171, R.176, M.182, C.183, Y.184, Y.185, K.211, Y.387, W.408, L.411, P.412, T.415, F.419 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.112, A:F.112, A:Y.184, A:Y.387, A:L.411, A:T.415 Hydrogen bonds: A:Y.185, A:Y.387, A:Y.387 Salt bridges: A:R.171, A:K.211 pi-Cation interactions: A:R.171

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

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: 7 residues within 4Å: Chain A: G.314, F.315, T.316, N.317, S.318, N.333 Ligands: SIN.15 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.316, A:N.317, A:N.317, A:N.333 SO4.4: 6 residues within 4Å: Chain A: G.367, R.368, F.369, V.370, R.371, C.433 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:F.369, A:V.370, A:R.371 Salt bridges: A:R.371 SO4.5: 4 residues within 4Å: Chain A: M.62, R.63, D.435, K.439 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.63, A:R.63 Salt bridges: A:K.439 SO4.6: 7 residues within 4Å: Chain A: T.65, V.66, V.67, Q.133, R.144, R.365, R.368 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:T.65, A:V.66, A:V.67, A:Q.133, A:R.365 Salt bridges: A:R.144, A:R.368 SO4.7: 7 residues within 4Å: Chain A: R.144, T.145, V.146, T.343, P.344, N.345, R.346 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.145, A:V.146, A:N.345, A:N.345, A:R.346 SO4.8: 5 residues within 4Å: Chain A: R.136, R.233, G.256, G.257, K.266 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.233 Salt bridges: A:R.136, A:K.266 SO4.9: 2 residues within 4Å: Chain A: A.274, R.277 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.277 SO4.10: 2 residues within 4Å: Chain A: D.290, R.297 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.297

5 x SIN: SUCCINIC ACID(Non-covalent)

SIN.11: 6 residues within 4Å: Chain A: F.121, S.124, L.128, L.156, V.218, I.222 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.121 Hydrogen bonds: A:S.124, A:S.124 SIN.12: 5 residues within 4Å: Chain A: R.371, C.433, P.434, D.435, R.438 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:P.434 Salt bridges: A:R.371, A:R.438 SIN.13: 3 residues within 4Å: Chain A: H.96, R.176, R.180 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:H.96, A:R.176, A:R.180 SIN.14: 5 residues within 4Å: Chain A: H.143, T.145, A.148, Q.306, R.346 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.346 SIN.15: 4 residues within 4Å: Chain A: F.315, S.337, R.338 Ligands: SO4.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.338

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

PGE.16: 5 residues within 4Å: Chain A: E.249, M.250, L.251, I.253, I.301 No protein-ligand interaction detected (PLIP)

1 x OLA: OLEIC ACID(Non-covalent)

OLA.17: 8 residues within 4Å: Chain A: L.48, G.52, L.55, F.56, G.59, C.60, L.72, H.150 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.55, A:F.56 Salt bridges: A:H.150

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

PGO.18: 3 residues within 4Å: Chain A: D.129, R.144, A.148 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.148 Hydrogen bonds: A:D.129

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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