SMTL ID : 7jpl.1

Rabbit Cav1.1 in the presence of 10 micromolar (S)-(-)-Bay K8644 in nanodiscs at 3.4 Angstrom resolution

Coordinates

PDB Format Compare

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 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.292, A:E.614, A:E.1014

9 x 3PE: 1,2-Distearoyl-sn-glycerophosphoethanolamine(Non-covalent)

3PE.2: 13 residues within 4Å: Chain A: P.1181, W.1182, I.1244, R.1254, L.1257, W.1258 Chain B: L.200, L.204, M.207, P.208, P.211, E.213, S.214 12 PLIP interactions: 7 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:P.1181, A:W.1182, A:W.1182, A:I.1244, A:R.1254, A:L.1257, B:L.200, B:L.204 Hydrogen bonds: A:R.1254, B:E.213, B:S.214, B:C.215 3PE.3: 13 residues within 4Å: Chain A: L.204, I.208, N.277, F.278, G.279, M.282, M.1129, T.1132, I.1133, G.1136, M.1137, H.1139 Ligands: 3PE.5 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.204, A:I.208, A:F.278, A:F.278, A:T.1132, A:I.1133 Salt bridges: A:H.1139 3PE.4: 10 residues within 4Å: Chain A: L.1001, S.1002, M.1005, Y.1358, Y.1359, I.1362, S.1363, M.1366, F.1370 Ligands: C8U.12 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:M.1005, A:Y.1358, A:M.1366, A:F.1370 3PE.5: 17 residues within 4Å: Chain A: M.193, A.200, N.277, G.279, F.280, M.282, L.283, Y.286, S.631, V.635, L.636, C.638, I.642, I.643, V.646, C.647 Ligands: 3PE.3 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:A.200, A:Y.286, A:Y.286, A:L.636, A:I.642, A:I.643, A:V.646, A:V.646 Hydrogen bonds: A:N.277 3PE.6: 12 residues within 4Å: Chain A: A.163, A.166, V.169, F.573, L.576, L.580, R.584, Y.627, P.633, L.636, V.637, I.643 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:A.163, A:V.169, A:F.573, A:F.573, A:L.580, A:Y.627, A:P.633, A:V.637, A:I.643 Salt bridges: A:R.584 3PE.7: 12 residues within 4Å: Chain A: F.62, C.65, A.69, V.70, F.567, I.571, N.599, F.600, P.601, L.604, I.1047 Ligands: 3PE.8 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.62, A:F.567, A:I.571, A:F.600, A:L.604, A:I.1047 Hydrogen bonds: A:N.599 3PE.8: 8 residues within 4Å: Chain A: F.567, P.601, L.604, F.608, V.1039, E.1040, I.1046 Ligands: 3PE.7 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.567, A:L.604, A:F.608, A:I.1046, A:I.1046 3PE.10: 8 residues within 4Å: Chain A: C.529, F.942, L.949, E.1040, M.1041, I.1043, F.1044, L.1051 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.942, A:F.1044, A:L.1051 Hydrogen bonds: A:E.1040 3PE.11: 13 residues within 4Å: Chain A: N.307, E.308, W.311, V.315, L.319, V.1275, F.1278, T.1308, P.1310, Q.1311, V.1313, L.1314, F.1317 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:W.311, A:W.311, A:V.315, A:L.319, A:V.1275, A:V.1275, A:F.1278, A:P.1310, A:P.1310, A:V.1313, A:F.1317

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

PC1.9: 13 residues within 4Å: Chain A: I.209, Y.210, I.213, L.217, I.305, W.309, P.310, I.312, L.320, A.1233, F.1234, L.1237 Chain B: Q.160 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:Y.210, A:I.213, A:L.217, A:W.309, A:W.309, A:I.312, A:L.320, A:F.1234, A:F.1234, A:L.1237

1 x C8U: methyl (4~{S})-2,6-dimethyl-5-nitro-4-[2-(trifluoromethyl)phenyl]-1,4-dihydropyridine-3-carboxylate(Non-covalent)

C8U.12: 12 residues within 4Å: Chain A: V.932, T.935, Q.939, F.1008, S.1011, T.1012, M.1056, M.1057, Y.1365, M.1366, A.1369 Ligands: 3PE.4 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:T.935, A:T.1012, A:Y.1365 Hydrogen bonds: A:S.1011, 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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