SMTL ID : 5kmh.1

Structure of CavAb in complex with Br-verapamil

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

homo-tetramer

Ligands

3 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: L.194, D.195, D.196 Chain B: D.195 No protein-ligand interaction detected (PLIP) CA.2: 2 residues within 4Å: Chain A: L.194 Ligands: 6U8.10 No protein-ligand interaction detected (PLIP) CA.11: 1 residues within 4Å: Chain D: D.196 No protein-ligand interaction detected (PLIP)

6 x MC3: 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)

MC3.3: 10 residues within 4Å: Chain A: F.159, T.180, G.182, E.183, F.185, F.189 Chain C: M.206, W.213, I.217, F.221 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:F.159, A:F.185, A:F.185, A:F.189, C:W.213, C:I.217, C:F.221 Hydrogen bonds: A:G.182 MC3.4: 9 residues within 4Å: Chain A: W.213, I.217, F.221 Chain B: F.159, T.180, G.182, E.183, F.185, F.189 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.185, B:F.189, A:F.221, A:F.221 MC3.6: 4 residues within 4Å: Chain A: G.48, T.51, S.52 Chain C: L.181 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:L.181, A:T.51, A:S.52 MC3.8: 3 residues within 4Å: Chain B: L.49, S.52, F.55 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.52 MC3.12: 6 residues within 4Å: Chain B: W.213, I.217 Chain D: T.156, G.182, F.185, F.189 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:F.185, D:F.189, D:F.189 MC3.14: 6 residues within 4Å: Chain B: T.180, L.181, G.182 Chain D: T.51, S.52, T.54 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:L.181, B:G.182, D:T.54

4 x PX6: 1,2-DIPALMITOYL-SN-GLYCERO-3-PHOSPHATE(Non-covalent)

PX6.5: 5 residues within 4Å: Chain A: L.169, Y.209, Y.211, A.212 Chain B: I.115 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.211, A:Y.211 PX6.7: 3 residues within 4Å: Chain B: Y.209, Y.211 Chain D: I.115 No protein-ligand interaction detected (PLIP) PX6.9: 6 residues within 4Å: Chain A: I.115 Chain C: L.169, F.170, Y.209, Y.211, A.212 No protein-ligand interaction detected (PLIP) PX6.13: 6 residues within 4Å: Chain C: I.115 Chain D: L.169, F.170, Y.209, Y.211, A.212 No protein-ligand interaction detected (PLIP)

1 x 6U8: (2~{R})-2-(2-bromophenyl)-5-[2-(3,4-dimethoxyphenyl)ethyl-methyl-amino]-2-propan-2-yl-pentanenitrile(Non-covalent)

6U8.10: 7 residues within 4Å: Chain A: M.192, L.194 Chain B: L.194 Chain C: T.224 Chain D: M.192, T.224 Ligands: CA.2 3 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: A:L.194, D:T.224 Hydrogen bonds: C:T.224

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tang, L. et al., Structural basis for inhibition of a voltage-gated Ca(2+) channel by Ca(2+) antagonist drugs. Nature (2016)

Release Date

2016-08-31

Peptides

Ion transport protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Membrane

We predict this structure to be a membrane protein.
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Ion transport protein

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