SMTL ID : 8wpg.1

Human calcium-sensing receptor bound with cinacalcet in detergent

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

4 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 5 residues within 4Å: Chain A: R.216, N.218, F.550, N.552, D.556 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.216 NAG-NAG.2: 4 residues within 4Å: Chain A: N.499, Y.521, N.523, Y.525 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 5 residues within 4Å: Chain B: K.334, N.499, Y.521, N.523, Y.525 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 5 residues within 4Å: Chain B: R.216, N.218, F.550, N.552, D.556 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.216

5 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.5: 3 residues within 4Å: Chain A: H.265, V.269, N.272 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.269 Hydrogen bonds: A:N.272 NAG.6: 2 residues within 4Å: Chain A: N.298, T.300 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.298 NAG.7: 2 residues within 4Å: Chain A: N.479, Q.487 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.479, A:Q.487 NAG.14: 4 residues within 4Å: Chain B: H.265, E.268, V.269, N.272 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:V.269 Hydrogen bonds: B:N.272 NAG.15: 2 residues within 4Å: Chain B: N.298, T.300 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.298

2 x TRP: TRYPTOPHAN(Non-covalent)

TRP.8: 11 residues within 4Å: Chain A: R.77, T.156, G.157, S.158, A.179, S.180, S.181, Y.229, E.308, A.309, I.427 7 PLIP interactions: 7 interactions with chain A, Hydrophobic interactions: A:T.156, A:A.179 Hydrogen bonds: A:S.158, A:S.181, A:S.181, A:E.308 pi-Stacking: A:W.81 TRP.16: 11 residues within 4Å: Chain B: R.77, T.156, G.157, S.158, A.179, S.180, S.181, Y.229, E.308, A.309, I.427 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:T.156, B:A.179 Hydrogen bonds: B:S.158, B:S.181, B:S.181, B:E.308 pi-Stacking: B:W.81

4 x CA: CALCIUM ION(Non-covalent)

CA.9: 6 residues within 4Å: Chain A: I.92, N.93, S.95, L.98, L.99, L.102 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:I.92, A:S.95, A:L.98, A:L.99 CA.10: 2 residues within 4Å: Chain A: G.568 Chain B: D.245 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:G.568 CA.11: 2 residues within 4Å: Chain A: D.245 Chain B: G.568 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Metal complexes: A:D.245, B:G.568 CA.17: 4 residues within 4Å: Chain B: I.92, S.95, L.98, L.99 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:I.92, B:S.95

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.12: 8 residues within 4Å: Chain A: R.77, R.80, W.81, H.424, L.425, R.426, I.427, S.428 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.426, A:I.427, A:S.428 Salt bridges: A:R.77, A:R.80 PO4.18: 8 residues within 4Å: Chain B: R.77, R.80, W.81, H.424, L.425, R.426, I.427, S.428 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:W.81, B:R.426, B:I.427, B:S.428 Salt bridges: B:R.77, B:R.80

2 x YP4: N-[(1R)-1-(naphthalen-1-yl)ethyl]-3-[3-(trifluoromethyl)phenyl]propan-1-amine(Non-covalent)

YP4.13: 12 residues within 4Å: Chain A: F.679, Q.692, F.695, G.696, L.787, I.788, T.791, W.829, I.833, Y.836, E.848, I.852 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:F.679, A:F.695, A:L.787, A:I.788, A:T.791, A:W.829, A:W.829, A:I.833, A:Y.836, A:Y.836, A:I.852 Hydrogen bonds: A:Q.692, A:E.848 pi-Stacking: A:F.695, A:F.695, A:W.829, A:W.829 YP4.19: 12 residues within 4Å: Chain B: Q.692, F.695, G.696, L.787, I.788, T.791, F.825, W.829, I.833, Y.836, E.848, I.852 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:F.695, B:L.787, B:I.788, B:T.791, B:F.825, B:W.829, B:W.829, B:I.833, B:I.852 Hydrogen bonds: B:E.848 pi-Stacking: B:F.695, B:W.829, B:W.829, B:Y.836 Halogen bonds: B:W.829

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ling, S. et al., Structural insights into asymmetric activation of the calcium-sensing receptor-G q complex. Cell Res. (2024)

Release Date

2023-11-22

Peptides

Extracellular calcium-sensing receptor: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Membrane

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

Extracellular calcium-sensing receptor