SMTL ID : 7jpw.1

Rabbit Cav1.1 in the presence of 100 micromolar (R)-(+)-Bay K8644 in nanodiscs at 3.2 Angstrom resolution

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: E.292, E.614, E.1014, G.1322 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.292, A:E.614, A:E.1014, A:E.1014

9 x 3PE: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOETHANOLAMINE(Non-covalent)

3PE.2: 9 residues within 4Å: Chain A: P.1181, W.1182, R.1254, W.1258, I.1261 Chain B: M.207, E.213, S.214, C.215 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:P.1181, A:W.1182, A:R.1254, A:I.1261 Salt bridges: A:R.1254 Hydrogen bonds: B:E.213, B:C.215 3PE.3: 11 residues within 4Å: Chain A: F.197, L.204, F.205, N.277, F.278, G.279, M.282, M.1129, T.1132, H.1139 Ligands: 3PE.5 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.197, A:L.204, A:F.205, A:F.278, A:F.278, A:T.1132 Salt bridges: A:H.1139 3PE.4: 12 residues within 4Å: Chain A: Q.939, L.1001, S.1002, M.1005, Y.1358, Y.1359, I.1362, S.1363, M.1366, L.1367, F.1370 Ligands: VFY.12 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.1359, A:Y.1359, A:M.1366, A:L.1367, A:F.1370, A:F.1370 3PE.5: 15 residues within 4Å: Chain A: N.277, G.279, F.280, M.282, L.283, Y.286, P.630, S.631, Y.632, V.635, C.638, I.642, V.646, C.647 Ligands: 3PE.3 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.286, A:Y.286, A:I.642, A:I.642, A:V.646 Hydrogen bonds: A:N.277, A:S.631 3PE.6: 14 residues within 4Å: Chain A: A.163, A.166, F.167, V.169, I.572, F.573, L.576, L.580, R.584, Y.627, P.633, L.636, V.637, I.643 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:A.163, A:A.166, A:F.167, A:V.169, A:I.572, A:F.573, A:L.576, A:L.576, A:L.580, A:Y.627, A:V.637, A:I.643 Hydrogen bonds: A:Y.627 Salt bridges: A:R.584 3PE.7: 12 residues within 4Å: Chain A: F.62, A.69, V.70, L.175, F.567, L.568, I.571, N.599, F.600, P.601, L.604 Ligands: 3PE.8 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.62, A:A.69, A:L.175, A:F.567, A:L.568, A:I.571, A:F.600 Hydrogen bonds: A:N.599 3PE.8: 6 residues within 4Å: Chain A: F.567, P.601, L.604, V.1039, I.1046 Ligands: 3PE.7 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.567, A:L.604, A:I.1046 3PE.10: 8 residues within 4Å: Chain A: V.526, C.529, L.533, F.942, I.945, E.1040, M.1041, F.1044 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.533, A:F.942, A:I.945 Hydrogen bonds: A:E.1040 3PE.11: 11 residues within 4Å: Chain A: N.307, E.308, W.311, L.319, F.323, V.1275, T.1308, P.1310, Q.1311, V.1313, L.1314 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.311, A:L.319, A:F.323, A:V.1275, A:V.1275, A:P.1310, A:P.1310

1 x PC1: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)

PC1.9: 17 residues within 4Å: Chain A: L.202, M.206, Y.210, I.213, L.217, F.218, I.305, W.309, P.310, I.312, Y.313, L.320, A.1233, F.1234, M.1241, I.1244 Chain B: E.156 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.202, A:Y.210, A:L.217, A:W.309, A:I.312, A:I.312, A:L.320, A:F.1234, A:I.1244

1 x VFY: methyl (4~{R})-2,6-dimethyl-5-nitro-4-[2-(trifluoromethyl)phenyl]-1,4-dihydropyridine-3-carboxylate(Non-covalent)

VFY.12: 11 residues within 4Å: Chain A: V.932, T.935, Q.939, F.1008, S.1011, M.1056, M.1057, F.1060, M.1366, A.1369 Ligands: 3PE.4 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.1008, A:M.1057 Hydrogen bonds: A:S.1011

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gao, S. et al., Structural Basis of the Modulation of the Voltage-Gated Calcium Ion Channel Ca v 1.1 by Dihydropyridine Compounds*. Angew.Chem.Int.Ed.Engl. (2021)

Release Date

2020-11-18

Peptides

Voltage-dependent L-type calcium channel subunit alpha-1S: A
Voltage-dependent calcium channel gamma-1 subunit: B
Voltage-dependent calcium channel subunit alpha-2/delta-1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
E

C
F

Membrane

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

Voltage-dependent calcium channel gamma-1 subunit

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

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