SMTL ID : 6rz5.1 (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

1 x ZLK: zafirlukast(Non-covalent)

ZLK.1: 19 residues within 4Å: Chain A: Y.107, Y.111, F.115, F.153, T.157, S.158, P.160, F.161, P.179, L.192, H.193, S.196, Y.361, R.365, H.368, V.389, T.392, L.393 Ligands: OLA.15 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:Y.111, A:Y.111, A:F.115, A:F.153, A:P.160, A:P.160, A:F.161, A:F.161, A:L.192, A:Y.361, A:Y.361, A:R.365, A:V.389, A:V.389, A:L.393 Hydrogen bonds: A:T.157, A:Y.361 pi-Cation interactions: A:R.365

8 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, F.153 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.145, A:F.153 OLC.3: 3 residues within 4Å: Chain A: F.153, L.156, V.195 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.153, A:L.156, A:V.195 OLC.4: 5 residues within 4Å: Chain A: V.39, G.43, C.401, P.404, L.405 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.39, A:P.404, A:L.405, A:L.405 OLC.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) OLC.6: 3 residues within 4Å: Chain A: M.348, T.351 Ligands: OLA.12 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.351 OLC.7: 4 residues within 4Å: Chain A: Y.194, F.198, T.366, H.370 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.194, A:F.198, A:T.366 Salt bridges: A:H.370 OLC.8: 6 residues within 4Å: Chain A: L.32, M.35, I.36, L.395, S.398, C.401 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.32, A:L.32, A:I.36, A:L.395 OLC.9: 6 residues within 4Å: Chain A: F.122, I.126, I.207, V.210, C.211, M.214 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.126, A:I.207, A:V.210, A:V.210

11 x OLA: OLEIC ACID(Non-covalent)

OLA.10: 4 residues within 4Å: Chain A: G.345, M.348, F.408, F.409 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:M.348, A:F.409, A:F.409 Hydrogen bonds: A:F.409 OLA.11: 3 residues within 4Å: Chain A: V.83, V.84, H.88 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.83, A:V.84 Salt bridges: A:H.88 OLA.12: 6 residues within 4Å: Chain A: I.216, L.219, S.223, H.340, I.344 Ligands: OLC.6 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.216 Hydrogen bonds: A:L.219, A:S.223 OLA.13: 9 residues within 4Å: Chain A: V.63, N.67, V.70, L.74, Y.104, R.144, C.147, W.151, I.155 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:V.70, A:L.74, A:Y.104, A:W.151, A:W.151, A:W.151, A:I.155 Hydrogen bonds: A:N.67 OLA.14: 5 residues within 4Å: Chain A: K.186, N.187, H.188, V.189 Ligands: OLA.15 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.189 Hydrogen bonds: A:N.187, A:H.188 Salt bridges: A:K.186, A:H.188 OLA.15: 3 residues within 4Å: Chain A: L.192 Ligands: ZLK.1, OLA.14 No protein-ligand interaction detected (PLIP) OLA.16: 5 residues within 4Å: Chain A: N.187, L.190, V.191, Y.194, F.198 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.190, A:Y.194, A:F.198 Hydrogen bonds: A:N.187 OLA.17: 3 residues within 4Å: Chain A: T.213, M.214, L.217 No protein-ligand interaction detected (PLIP) OLA.18: 3 residues within 4Å: Chain A: F.115, T.118, F.122 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.115, A:T.118, A:F.122 OLA.19: 3 residues within 4Å: Chain A: T.351, L.355, M.359 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:T.351, A:L.355 OLA.20: 2 residues within 4Å: Chain A: L.220, S.223 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.220 Hydrogen bonds: A:S.223

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.21: 3 residues within 4Å: Chain A: K.221, M.224, K.225 No protein-ligand interaction detected (PLIP)

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

NA.22: 5 residues within 4Å: Chain A: D.72, N.109, S.113, N.399, 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
A

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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