SMTL ID : 7sim.1

Structure of positive allosteric modulator-free active human calcium-sensing receptor

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: 6 residues within 4Å: Chain A: K.323, E.475, N.488, Y.510, N.512, Y.514 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain A: R.205, N.207, F.539, N.541 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 6 residues within 4Å: Chain B: K.323, E.475, N.488, Y.510, N.512, Y.514 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 4 residues within 4Å: Chain B: R.205, N.207, F.539, N.541 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:R.205

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

NAG.5: 2 residues within 4Å: Chain A: N.468, Q.476 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.468 NAG.17: 2 residues within 4Å: Chain B: N.468, Q.476 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.468

2 x TCR: CYCLOMETHYLTRYPTOPHAN(Non-covalent)

TCR.6: 12 residues within 4Å: Chain A: R.66, W.70, T.145, G.146, S.147, A.168, S.169, S.170, I.187, Y.218, E.297, A.298 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.70, A:T.145, A:A.298 Hydrogen bonds: A:S.147, A:A.168, A:S.170, A:S.170, A:S.171 TCR.18: 12 residues within 4Å: Chain B: R.66, W.70, T.145, G.146, S.147, A.168, S.169, S.170, I.187, Y.218, E.297, A.298 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:W.70, B:T.145, B:A.298 Hydrogen bonds: B:S.147, B:A.168, B:S.170, B:S.170, B:S.171

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

PO4.7: 8 residues within 4Å: Chain A: R.66, R.69, W.70, H.413, L.414, R.415, I.416, S.417 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:W.70, A:H.413, A:R.415, A:I.416, A:S.417 Salt bridges: A:R.66, A:R.69 PO4.19: 8 residues within 4Å: Chain B: R.66, R.69, W.70, H.413, L.414, R.415, I.416, S.417 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:W.70, B:H.413, B:R.415, B:I.416, B:S.417 Salt bridges: B:R.66, B:R.69

8 x CA: CALCIUM ION(Non-covalent)

CA.8: 7 residues within 4Å: Chain A: I.81, N.82, S.84, L.87, L.88, P.89, L.91 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:I.81, A:L.87, A:L.88 CA.9: 4 residues within 4Å: Chain A: T.100, A.144, T.145, G.146 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.100 CA.10: 2 residues within 4Å: Chain A: G.273, S.302 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.302 CA.11: 2 residues within 4Å: Chain A: G.557 Chain B: D.234 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:G.557 CA.20: 7 residues within 4Å: Chain B: I.81, N.82, S.84, L.87, L.88, P.89, L.91 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:L.87, B:L.88 CA.21: 5 residues within 4Å: Chain B: T.100, N.102, A.144, T.145, G.146 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.100 CA.22: 3 residues within 4Å: Chain B: G.273, P.274, S.302 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:S.302 CA.23: 2 residues within 4Å: Chain A: D.234 Chain B: G.557 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:G.557

8 x CLR: CHOLESTEROL(Non-covalent)

CLR.12: 9 residues within 4Å: Chain A: F.612, F.821, F.832, V.836, I.839, A.843 Chain B: I.819, P.823 Ligands: CLR.15 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:F.612, A:F.821, A:F.821, A:V.836, A:I.839, A:A.843, B:I.819, B:P.823, B:P.823 CLR.13: 11 residues within 4Å: Chain A: F.809, L.812, S.820 Chain B: F.809, I.813, I.816, V.817, S.820 Ligands: CLR.15, CLR.24, CLR.25 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.809, B:F.809, B:I.816, B:I.816, B:V.817, A:L.812, A:L.812 CLR.14: 8 residues within 4Å: Chain A: F.806, I.813, A.843, G.847, A.850, F.854, N.855 Ligands: CLR.15 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.806, A:I.813, A:A.850, A:F.854 CLR.15: 11 residues within 4Å: Chain A: F.809, I.813, I.816, V.817, S.820 Chain B: F.809, L.812, I.819 Ligands: CLR.12, CLR.13, CLR.14 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:F.809, A:F.809, A:I.816, A:V.817, B:L.812, B:I.819 CLR.16: 4 residues within 4Å: Chain A: A.785, F.788, F.789, F.792 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.785, A:F.788, A:F.789 CLR.24: 9 residues within 4Å: Chain A: I.819, P.823 Chain B: F.612, F.821, F.832, V.836, I.839, A.843 Ligands: CLR.13 8 PLIP interactions: 5 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:F.612, B:F.821, B:F.821, B:V.836, B:A.843, A:I.819, A:P.823, A:P.823 CLR.25: 4 residues within 4Å: Chain B: F.806, I.813, A.850 Ligands: CLR.13 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.806, B:I.813, B:A.850 CLR.26: 5 residues within 4Å: Chain B: A.785, F.788, F.789, F.792, F.815 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:A.785, B:F.788, B:F.789, B:F.789, B:F.815

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Park, J. et al., Symmetric activation and modulation of the human calcium-sensing receptor. Proc.Natl.Acad.Sci.USA (2021)

Release Date

2022-01-19

Peptides

Isoform 1 of Extracellular 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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Isoform 1 of Extracellular calcium-sensing receptor

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