SMTL ID : 8wea.1

Human L-type voltage-gated calcium channel Cav1.2 (Class II) in the presence of pinaverium at 3.2 Angstrom resolution

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-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: 5 residues within 4Å: Chain B: V.107, R.114, N.120, N.184, W.185 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: 1 residues within 4Å: Chain B: N.348 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 3 residues within 4Å: Chain B: E.80, R.84, N.613 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 7 residues within 4Å: Chain B: E.567, N.568, L.591, A.893, F.894, 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: 9 residues within 4Å: Chain B: Q.108, W.113, E.115, E.182, N.468, T.470, K.480, N.481, L.485 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.115

2 x CA: CALCIUM ION(Non-covalent)

CA.6: 1 residues within 4Å: Chain A: E.363 No protein-ligand interaction detected (PLIP) CA.9: 4 residues within 4Å: Chain A: D.151 Chain B: S.261, S.263, T.331 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:S.261

1 x 9Z9: (3beta,14beta,17beta,25R)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en(Non-covalent)

9Z9.7: 8 residues within 4Å: Chain A: L.401, S.405, L.749, V.1162, F.1169, Q.1170, M.1504, F.1507 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.401, A:L.401, A:L.749, A:V.1162, A:F.1169, A:F.1507, A:F.1507

1 x WB9: 4-[(2-bromanyl-4,5-dimethoxy-phenyl)methyl]-4-[2-[2-[(1~{R},2~{S},5~{R})-6,6-dimethyl-2-bicyclo[3.1.1]heptanyl]ethoxy]ethyl]morpholin-4-ium(Non-covalent)

WB9.8: 12 residues within 4Å: Chain A: N.1010, K.1013, G.1014, V.1018, C.1021, V.1022, A.1025, Y.1390, L.1394, F.1493, L.1494, N.1497 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:V.1022, A:A.1025, A:Y.1390, A:L.1394, A:F.1493, A:L.1494 Hydrogen bonds: A:V.1018, A:N.1497

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

NAG.10: 4 residues within 4Å: Chain B: K.88, N.92, E.199, D.200 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.92, B:D.200, B:D.200 NAG.11: 3 residues within 4Å: Chain B: F.780, N.781, R.873 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.873, B:R.873

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

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

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