SMTL ID : 9kdg.1

CryoEM structure of Calcineurin-fusion Human endothelin receptor type-B in the ligand-free form

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 7 residues within 4Å: Chain A: D.301, D.303, S.305, S.307, S.309, E.312, E.339 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.301, A:D.303, A:S.305, A:S.307, A:E.312 CA.2: 5 residues within 4Å: Chain A: D.333, D.335, N.337, E.339, E.344 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.333, A:D.335, A:E.339, A:E.344, A:E.344 CA.3: 4 residues within 4Å: Chain A: D.370, D.374, Y.376, E.381 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.374, A:D.374, A:Y.376, A:E.381 CA.4: 5 residues within 4Å: Chain A: D.411, D.413, D.415, R.417, E.422 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.411, A:D.415, A:R.417, A:E.422, A:E.422

1 x FE: FE (III) ION(Non-covalent)

FE.5: 4 residues within 4Å: Chain A: D.622, H.624, D.650 Ligands: ZN.6 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.622, A:H.624, A:D.650

1 x ZN: ZINC ION(Non-covalent)

ZN.6: 5 residues within 4Å: Chain A: D.650, N.682, H.731, H.813 Ligands: FE.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.650, A:D.650, A:H.731, A:H.813

1 x FK5: 8-DEETHYL-8-[BUT-3-ENYL]-ASCOMYCIN(Non-covalent)

FK5.7: 19 residues within 4Å: Chain A: V.390, N.393, Y.873, W.884, P.887, F.888, E.891 Chain B: Y.29, F.39, D.40, R.45, F.49, E.57, V.58, I.59, Y.85, H.90, V.93, F.102 15 PLIP interactions: 9 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:Y.29, B:F.49, B:F.49, B:F.49, B:V.58, B:Y.85, B:V.93, A:V.390, A:W.884, A:W.884, A:F.888, A:F.888, A:F.888 Hydrogen bonds: B:Y.29, B:I.59

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shihoya, W. et al., Structure of a lasso peptide bound ET B receptor provides insights into the mechanism of GPCR inverse agonism. Nat Commun (2025)

Release Date

2025-05-07

Peptides

Calcineurin-fusion endothelin receptor type-B: A
Peptidyl-prolyl cis-trans isomerase FKBP1B: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
F

Membrane

We predict this structure to be a membrane protein.
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Calcineurin-fusion endothelin receptor type-B

Peptidyl-prolyl cis-trans isomerase FKBP1B

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