SMTL ID : 5x93.1

Human endothelin receptor type-B in complex with antagonist K-8794

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

1 x K87: 3-[6-[(4-tert-butylphenyl)sulfonylamino]-5-(2-methoxyphenoxy)-2-pyrimidin-2-yl-pyrimidin-4-yl]oxy-N-(2,6-dimethylphenyl)propanamide(Non-covalent)

K87.1: 22 residues within 4Å: Chain A: H.88, A.92, N.96, K.99, V.115, P.116, Q.119, K.120, V.123, E.174, F.178, C.193, K.211, L.215, Y.219, W.384, L.387, H.388, R.391, I.420, A.423, S.424 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:N.96, A:P.116, A:Q.119, A:L.215, A:W.384, A:W.384, A:L.387, A:I.420, A:A.423 Hydrogen bonds: A:Q.119, A:K.120, A:K.120, A:K.211, A:R.391, A:R.391 pi-Stacking: A:H.88, A:F.178 pi-Cation interactions: A:R.391

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

OLC.2: 6 residues within 4Å: Chain A: A.210, W.213, S.217, I.226 Ligands: OLC.6, OLC.12 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.210, A:W.213, A:I.226 OLC.3: 13 residues within 4Å: Chain A: G.84, L.87, K.113, F.117, I.118, A.121, I.125, W.164, V.168, A.175, I.176 Ligands: OLC.5, OLC.7 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.87, A:F.117, A:F.117, A:I.118, A:A.121, A:I.125, A:W.164, A:V.168, A:V.168 Water bridges: A:K.113, A:I.176 OLC.4: 2 residues within 4Å: Chain A: E.33 Ligands: OLC.9 No protein-ligand interaction detected (PLIP) OLC.5: 5 residues within 4Å: Chain A: W.164, V.168, I.176 Ligands: OLC.3, OLC.11 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.164, A:V.168, A:V.168 OLC.6: 10 residues within 4Å: Chain A: V.169, L.170, P.173, I.176, T.201, F.203, Y.207, W.214 Ligands: OLC.2, OLC.11 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:V.169, A:L.170, A:P.173, A:I.176, A:T.201, A:F.203, A:F.203, A:Y.207, A:W.214, A:W.214 OLC.7: 3 residues within 4Å: Chain A: E.110, M.111 Ligands: OLC.3 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:E.110 OLC.8: 8 residues within 4Å: Chain A: K.371, C.375, L.378, V.379, L.382, C.383, M.422 Ligands: OLC.10 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.378, A:V.379, A:L.382 OLC.9: 7 residues within 4Å: Chain A: T.37, Y.40, I.41, V.44, L.48 Ligands: OLC.4, CLR.13 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.40, A:I.41, A:V.44, A:L.48 OLC.10: 8 residues within 4Å: Chain A: L.52, K.371, C.375, A.429, I.432, L.436, V.437 Ligands: OLC.8 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.52, A:A.429, A:I.432, A:I.432, A:L.436, A:L.436 Salt bridges: A:K.371 OLC.11: 5 residues within 4Å: Chain A: V.161, V.165, V.169 Ligands: OLC.5, OLC.6 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.161, A:V.165, A:V.169, A:V.169 OLC.12: 5 residues within 4Å: Chain A: W.213, S.217, C.221, A.225 Ligands: OLC.2 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.225

1 x CLR: CHOLESTEROL(Non-covalent)

CLR.13: 7 residues within 4Å: Chain A: T.43, V.44, C.47, L.48, V.51, L.101 Ligands: OLC.9 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.43, A:L.48, A:V.51, A:L.101

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

SO4.14: 4 residues within 4Å: Chain A: T.339, P.340, N.341, R.342 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.341, A:N.341, A:R.342 SO4.15: 3 residues within 4Å: Chain A: A.270, R.273, R.277 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.273, A:R.277 SO4.16: 6 residues within 4Å: Chain A: C.69, G.73, P.74, R.137, R.146, K.148 5 PLIP interactions: 5 interactions with chain A Water bridges: A:C.69, A:G.73 Salt bridges: A:R.137, A:R.146, A:K.148 SO4.17: 6 residues within 4Å: Chain A: G.310, F.311, T.312, N.313, S.314, N.329 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.312, A:N.313, A:N.313, A:S.314, A:N.329 SO4.18: 1 residues within 4Å: Chain A: H.362 3 PLIP interactions: 3 interactions with chain A Water bridges: A:S.145, A:H.362 Salt bridges: A:H.362

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shihoya, W. et al., X-ray structures of endothelin ETB receptor bound to clinical antagonist bosentan and its analog. Nat. Struct. Mol. Biol. (2017)

Release Date

2017-08-16

Peptides

Endothelin B receptor,Endolysin,Endothelin B receptor: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Endothelin B receptor,Endolysin,Endothelin B receptor

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