SMTL ID : 6jp8.1

Rabbit Cav1.1-Bay K8644 Complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-1-1-mer

Ligands

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

NAG-NAG.1: 2 residues within 4Å: Chain E: N.320, N.322 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain E: E.54, A.57, R.58, N.587 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 2 residues within 4Å: Chain E: N.869, F.956 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 1 residues within 4Å: Chain E: N.649 No protein-ligand interaction detected (PLIP)

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

NAG-NAG-BMA.3: 4 residues within 4Å: Chain E: R.88, N.94, N.158, W.159 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.4: 12 residues within 4Å: Chain E: Q.82, W.87, E.89, E.156, W.159, N.442, T.444, T.451, L.453, K.454, N.455, L.459 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:T.451 Hydrogen bonds: E:K.454

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

NAG-NAG-NAG.7: 6 residues within 4Å: Chain E: D.17, L.21, T.24, Q.697, I.700, N.798 No protein-ligand interaction detected (PLIP)

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

C8U.8: 11 residues within 4Å: Chain D: V.932, T.935, T.936, Q.939, F.1008, S.1011, T.1012, Y.1048, M.1057, Y.1365, M.1366 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:F.1008, D:T.1012, D:Y.1365 Hydrogen bonds: D:S.1011, D:S.1011

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

NAG.9: 2 residues within 4Å: Chain D: N.257, G.258 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.257 NAG.13: 1 residues within 4Å: Chain E: N.298 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.298 NAG.14: 1 residues within 4Å: Chain E: N.862 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.862 NAG.15: 2 residues within 4Å: Chain E: L.63, N.66 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:L.63 Hydrogen bonds: E:N.66 NAG.16: 2 residues within 4Å: Chain E: R.563, N.578 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:R.563, E:R.563 NAG.17: 3 residues within 4Å: Chain E: F.754, N.755, R.847 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:R.847 NAG.18: 1 residues within 4Å: Chain E: N.972 No protein-ligand interaction detected (PLIP) NAG.19: 3 residues within 4Å: Chain E: N.959, S.961, F.964 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:S.961

2 x CA: CALCIUM ION(Non-covalent)

CA.10: 4 residues within 4Å: Chain D: E.292, E.614, E.1014, G.1322 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:E.292, D:E.292, D:E.1014 CA.11: 4 residues within 4Å: Chain D: E.292, T.612, E.614, F.1013 No protein-ligand interaction detected (PLIP)

1 x ETA: ETHANOLAMINE(Covalent)

ETA.12: 3 residues within 4Å: Chain E: Q.374, Y.384, C.1045 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:C.1045

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhao, Y. et al., Molecular Basis for Ligand Modulation of a Mammalian Voltage-Gated Ca2+Channel. Cell (2019)

Release Date

2019-06-12

Peptides

Voltage-dependent calcium channel gamma-1 subunit: A
Voltage-dependent L-type calcium channel subunit beta-1: BC
Voltage-dependent L-type calcium channel subunit alpha-1S: D
Voltage-dependent calcium channel subunit alpha-2/delta-1: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
B

C
C

D
A

E
F

Membrane

We predict this structure to be a membrane protein.
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Voltage-dependent calcium channel gamma-1 subunit

Voltage-dependent L-type calcium channel subunit beta-1

Voltage-dependent L-type calcium channel subunit alpha-1S

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

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