SMTL ID : 6rz5.2 (1 other biounit)

XFEL crystal structure of the human cysteinyl leukotriene receptor 1 in complex with zafirlukast

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.53 Å

Oligo State

monomer

Ligands

2 x ZLK: zafirlukast(Non-covalent)

ZLK.1: 20 residues within 4Å: Chain A: Y.107, Y.111, F.115, F.153, T.157, S.158, P.160, F.161, P.179, P.180, V.189, L.192, H.193, S.196, Y.361, R.365, H.368, V.389, T.392 Ligands: ZLK.19 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:Y.111, A:Y.111, A:F.115, A:F.153, A:P.160, A:F.161, A:L.192, A:Y.361, A:Y.361, A:V.389 Hydrogen bonds: A:T.157, A:Y.361 pi-Stacking: A:F.161, A:F.161 pi-Cation interactions: A:R.365 ZLK.19: 11 residues within 4Å: Chain A: L.156, T.157, S.159, P.160, F.161, A.164, H.188, V.189, L.192, S.196 Ligands: ZLK.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:T.157, A:P.160, A:P.160, A:P.160, A:V.189, A:L.192 Hydrogen bonds: A:T.157

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

OLC.2: 3 residues within 4Å: Chain A: F.145, G.149 Ligands: OLC.7 No protein-ligand interaction detected (PLIP) OLC.3: 3 residues within 4Å: Chain A: N.67, L.74, W.151 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.74, A:W.151 OLC.4: 5 residues within 4Å: Chain A: L.32, I.36, L.395, C.401 Ligands: OLC.6 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.32, A:L.32, A:I.36, A:L.395 OLC.5: 4 residues within 4Å: Chain A: M.348, A.352, F.402, F.409 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:M.348, A:A.352, A:F.402, A:F.409 OLC.6: 3 residues within 4Å: Chain A: I.391 Ligands: OLC.4, OLA.14 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.391 OLC.7: 2 residues within 4Å: Chain A: F.115 Ligands: OLC.2 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.115, A:F.115 OLC.8: 1 residues within 4Å: Ligands: OLA.11 No protein-ligand interaction detected (PLIP) OLC.9: 9 residues within 4Å: Chain A: L.197, F.201, I.202, F.205, H.362, I.363, T.366, I.367, H.370 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.197, A:I.202, A:F.205, A:I.363, A:T.366, A:I.367 OLC.10: 2 residues within 4Å: Chain A: V.191 Ligands: OLA.17 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.191

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

OLA.11: 8 residues within 4Å: Chain A: M.359, P.360, I.363, Q.364, T.392 Ligands: OLC.8, OLA.14, OLA.15 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.360, A:I.363 OLA.12: 4 residues within 4Å: Chain A: L.219, S.223, I.344, M.348 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.219 Hydrogen bonds: A:L.219, A:S.223 OLA.13: 5 residues within 4Å: Chain A: V.39, C.401, L.405, F.408, F.409 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.39, A:L.405, A:L.405, A:F.408, A:F.408, A:F.409 OLA.14: 6 residues within 4Å: Chain A: S.388, T.392, L.395 Ligands: OLC.6, OLA.11, OLA.15 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.392 OLA.15: 2 residues within 4Å: Ligands: OLA.11, OLA.14 No protein-ligand interaction detected (PLIP) OLA.16: 4 residues within 4Å: Chain A: L.190, F.198, H.370 Ligands: OLA.17 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.198, A:F.198 Salt bridges: A:H.370 OLA.17: 7 residues within 4Å: Chain A: N.187, L.190, V.191, Y.194, F.198 Ligands: OLC.10, OLA.16 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.191, A:Y.194, A:F.198, A:F.198 Hydrogen bonds: A:N.187 OLA.18: 7 residues within 4Å: Chain A: S.37, V.38, F.41, V.76, C.77, V.83, V.84 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.38, A:F.41, A:F.41, A:V.83

1 x NA: SODIUM ION(Non-functional Binders)

NA.20: 6 residues within 4Å: Chain A: D.72, N.109, S.113, N.399, C.400, D.403 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.109, A:S.113, A:N.399

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Luginina, A. et al., Structure-based mechanism of cysteinyl leukotriene receptor inhibition by antiasthmatic drugs. Sci Adv (2019)

Release Date

2019-10-30

Peptides

Cysteinyl leukotriene receptor 1,Soluble cytochrome b562,Cysteinyl leukotriene receptor 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Membrane

We predict this structure to be a membrane protein.
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Cysteinyl leukotriene receptor 1,Soluble cytochrome b562,Cysteinyl leukotriene receptor 1

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