SMTL ID : 8we7.1

Human L-type voltage-gated calcium channel Cav1.2 in the presence of calciseptine at 3.2 Angstrom resolution

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-mer

Ligands

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

NAG-NAG-NAG.1: 2 residues within 4Å: Chain B: N.120, N.184 No protein-ligand interaction detected (PLIP)

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

NAG-NAG.2: 2 residues within 4Å: Chain B: N.346, N.348 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 3 residues within 4Å: Chain B: A.83, P.611, N.613 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 6 residues within 4Å: Chain B: E.567, N.568, L.591, A.893, N.895, F.982 No protein-ligand interaction detected (PLIP)

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

NAG-NAG-NAG-NAG.3: 10 residues within 4Å: Chain B: Q.108, W.113, E.115, E.182, N.468, T.470, L.479, K.480, N.481, L.485 No protein-ligand interaction detected (PLIP)

2 x CA: CALCIUM ION(Non-covalent)

CA.6: 5 residues within 4Å: Chain A: E.363, E.706, E.1115, G.1443, E.1444 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.363, A:E.363, A:E.1115, A:E.1115 CA.10: 4 residues within 4Å: Chain A: D.151 Chain B: S.261, S.263, T.331 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Metal complexes: A:D.151, B:S.263

2 x CLR: CHOLESTEROL(Non-covalent)

CLR.7: 11 residues within 4Å: Chain A: F.665, L.668, L.672, Y.719, P.725, L.728, V.729, I.731, Y.732, I.735 Ligands: CLR.8 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.665, A:F.665, A:L.668, A:L.672, A:Y.719, A:Y.719, A:P.725, A:I.731, A:Y.732, A:I.735 CLR.8: 7 residues within 4Å: Chain A: A.235, A.238, F.239, V.241, L.242, L.668 Ligands: CLR.7 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:A.235, A:F.239, A:V.241, A:L.242, A:L.242, A:L.668, A:L.668

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

NAG.9: 4 residues within 4Å: Chain A: N.1416, T.1418, T.1419 Chain D: E.32 No protein-ligand interaction detected (PLIP) NAG.11: 2 residues within 4Å: Chain B: N.92, E.199 No protein-ligand interaction detected (PLIP) NAG.12: 2 residues within 4Å: Chain B: N.781, K.782 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.782

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gao, S. et al., Structural basis for human Ca v 1.2 inhibition by multiple drugs and the neurotoxin calciseptine. Cell (2023)

Release Date

2023-12-06

Peptides

Voltage-dependent L-type calcium channel subunit alpha-1C: A
Voltage-dependent calcium channel subunit alpha-2/delta-1: B
Voltage-dependent L-type calcium channel subunit beta-3: C
Calciseptin: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

C
C

D
B

Membrane

We predict this structure to be a membrane protein.
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Voltage-dependent L-type calcium channel subunit alpha-1C

Voltage-dependent calcium channel subunit alpha-2/delta-1

Voltage-dependent L-type calcium channel subunit beta-3

Calciseptin

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