SMTL ID : 7dd5.1

Structure of Calcium-Sensing Receptor in complex with NPS-2143

Coordinates

PDB Format

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: 4 residues within 4Å: Chain A: N.487, H.509, N.511, Y.513 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 5 residues within 4Å: Chain A: R.205, N.207, F.538, N.540, D.544 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 5 residues within 4Å: Chain B: K.323, N.487, H.509, N.511, Y.513 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.511 NAG-NAG.4: 5 residues within 4Å: Chain B: R.205, N.207, F.538, N.540, D.544 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.205

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 3 residues within 4Å: Chain A: R.66, R.69, W.70 Ligand excluded by PLIP CL.15: 4 residues within 4Å: Chain B: R.66, R.69, H.412, R.414 Ligand excluded by PLIP

6 x CA: CALCIUM ION(Non-covalent)

CA.6: 1 residues within 4Å: Chain A: D.234 No protein-ligand interaction detected (PLIP) CA.7: 2 residues within 4Å: Chain A: S.302 Ligands: TRP.12 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.302 CA.8: 4 residues within 4Å: Chain A: T.100, A.144, T.145, V.149 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:T.100, A:A.144 CA.14: 2 residues within 4Å: Chain A: G.556 Chain B: D.234 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.234 CA.16: 2 residues within 4Å: Chain B: S.302 Ligands: TRP.21 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:S.302 CA.17: 4 residues within 4Å: Chain B: T.100, A.144, T.145, V.149 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:T.100, B:A.144, B:T.145

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

NAG.9: 2 residues within 4Å: Chain A: N.287, T.289 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.287 NAG.10: 3 residues within 4Å: Chain A: N.399, T.401, S.402 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.401 NAG.11: 1 residues within 4Å: Chain A: N.467 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.467 NAG.18: 2 residues within 4Å: Chain B: N.287, T.289 No protein-ligand interaction detected (PLIP) NAG.19: 2 residues within 4Å: Chain B: N.399, T.401 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.401 NAG.20: 2 residues within 4Å: Chain B: N.467, Q.475 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.475

2 x TRP: TRYPTOPHAN(Non-covalent)

TRP.12: 10 residues within 4Å: Chain A: R.66, T.145, S.147, A.168, S.170, Y.218, E.297, A.298, I.415 Ligands: CA.7 4 PLIP interactions: 4 interactions with chain A, Hydrophobic interactions: A:A.168 Hydrogen bonds: A:S.147, A:S.170, A:S.170 TRP.21: 9 residues within 4Å: Chain B: R.66, T.145, S.147, A.168, S.170, Y.218, E.297, A.298 Ligands: CA.16 5 PLIP interactions: 5 interactions with chain B, Hydrophobic interactions: B:A.168 Hydrogen bonds: B:T.145, B:S.147, B:S.170, B:S.170

2 x YP1: 2-chloro-6-[(2R)-2-hydroxy-3-{[2-methyl-1-(naphthalen-2-yl)propan-2-yl]amino}propoxy]benzonitrile(Non-covalent)

YP1.13: 9 residues within 4Å: Chain A: Q.680, F.683, L.772, I.776, W.817, F.820, Y.824, E.836, I.840 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.683, A:L.772, A:I.776, A:Y.824, A:I.840 Hydrogen bonds: A:I.840 YP1.22: 8 residues within 4Å: Chain B: Q.680, F.683, I.776, W.817, F.820, Y.824, E.836, I.840 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:F.683, B:I.776, B:Y.824 Hydrogen bonds: B:I.840

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wen, T. et al., Structural basis for activation and allosteric modulation of full-length calcium-sensing receptor. Sci Adv (2021)

Release Date

2021-06-16

Peptides

Calcium-Sensing Receptor: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Calcium-Sensing Receptor

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