SMTL ID : 5klb.1

Crystal structure of the CavAb voltage-gated calcium channel(wild-type, 2.7A)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-tetramer

Ligands

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

MC3.1: 8 residues within 4Å: Chain A: P.93, W.94, F.97, F.125, V.128, S.139, I.142 Chain C: L.154 Ligand excluded by PLIP MC3.3: 12 residues within 4Å: Chain A: F.162, L.169, F.170, R.173, V.208, Y.209, Y.211, A.212, V.214 Chain D: I.115, L.119, F.125 Ligand excluded by PLIP MC3.8: 5 residues within 4Å: Chain B: P.93, W.94, F.97, F.125, S.139 Ligand excluded by PLIP MC3.9: 14 residues within 4Å: Chain B: V.41, G.44, G.48, L.49, S.52, T.54, L.124 Chain D: T.156, L.157, Y.160, T.180, L.181, G.182 Ligands: MC3.25 Ligand excluded by PLIP MC3.10: 14 residues within 4Å: Chain B: M.206, P.210, W.213, I.217, F.221 Chain C: I.152, M.155, T.156, G.182, E.183, F.185, Y.186, F.189 Ligands: MC3.21 Ligand excluded by PLIP MC3.11: 12 residues within 4Å: Chain B: F.162, L.169, F.170, V.208, Y.209, Y.211, A.212, V.222 Chain C: E.114, I.115, L.119, L.122 Ligand excluded by PLIP MC3.12: 4 residues within 4Å: Chain B: M.192, T.193 Chain D: T.224 Ligands: MC3.19 Ligand excluded by PLIP MC3.15: 8 residues within 4Å: Chain C: P.93, W.94, F.97, F.125, V.128, V.138, S.139, I.142 Ligand excluded by PLIP MC3.16: 16 residues within 4Å: Chain B: A.153, T.156, L.157, Y.160, T.180, L.181, G.182 Chain C: G.44, I.45, G.48, L.49, T.51, S.52, T.54, L.124 Ligands: MC3.26 Ligand excluded by PLIP MC3.17: 16 residues within 4Å: Chain A: I.152, M.155, T.156, F.159, T.180, G.182, E.183, F.185, Y.186, F.189 Chain C: M.206, P.210, W.213, I.217, F.221 Ligands: MC3.24 Ligand excluded by PLIP MC3.18: 11 residues within 4Å: Chain A: F.113, I.115, L.119, L.122 Chain C: F.162, L.169, F.170, V.208, Y.209, Y.211, A.212 Ligand excluded by PLIP MC3.19: 7 residues within 4Å: Chain B: L.194, T.224 Chain C: M.192, T.193, L.194, M.227 Ligands: MC3.12 Ligand excluded by PLIP MC3.20: 4 residues within 4Å: Chain A: M.227 Chain C: L.194, F.221, T.224 Ligand excluded by PLIP MC3.21: 16 residues within 4Å: Chain A: V.41, G.44, I.45, G.48, T.51, S.52, K.53, T.54, L.124 Chain C: T.156, L.157, Y.160, T.180, L.181, G.182 Ligands: MC3.10 Ligand excluded by PLIP MC3.23: 7 residues within 4Å: Chain D: P.93, W.94, F.97, F.125, V.138, S.139, I.142 Ligand excluded by PLIP MC3.24: 15 residues within 4Å: Chain A: T.156, L.157, Y.160, T.180, L.181, G.182 Chain D: V.41, I.45, G.48, L.49, T.51, S.52, T.54, L.124 Ligands: MC3.17 Ligand excluded by PLIP MC3.25: 17 residues within 4Å: Chain A: M.206, P.210, W.213, I.217, F.221 Chain D: I.152, M.155, T.156, F.159, T.180, G.182, E.183, F.185, Y.186, F.189, M.227 Ligands: MC3.9 Ligand excluded by PLIP MC3.26: 15 residues within 4Å: Chain B: I.152, T.156, F.159, T.180, G.182, E.183, F.185, Y.186, F.189, M.227 Chain D: M.206, P.210, W.213, I.217 Ligands: MC3.16 Ligand excluded by PLIP MC3.27: 11 residues within 4Å: Chain B: F.113, I.115 Chain D: F.162, L.169, F.170, R.173, V.208, Y.209, Y.211, A.212, V.214 Ligand excluded by PLIP MC3.28: 5 residues within 4Å: Chain A: L.194, F.221 Chain D: T.193, L.194, M.227 Ligand excluded by PLIP

3 x CA: CALCIUM ION(Non-covalent)

CA.2: 1 residues within 4Å: Chain A: D.196 No protein-ligand interaction detected (PLIP) CA.7: 8 residues within 4Å: Chain A: N.243, E.246 Chain B: N.243, E.246 Chain C: N.243, E.246 Chain D: N.243, E.246 No protein-ligand interaction detected (PLIP) CA.22: 1 residues within 4Å: Chain D: L.194 No protein-ligand interaction detected (PLIP)

6 x CPS: 3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE(Non-covalent)

CPS.4: 5 residues within 4Å: Chain A: Y.20, V.84, H.85, S.88, K.91 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.88, A:K.91 CPS.5: 9 residues within 4Å: Chain A: A.140, V.144 Chain C: V.144, G.147, M.148, A.233, I.234, D.237, I.241 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:A.233, C:D.237, C:I.241 Hydrogen bonds: C:V.144, C:G.147 CPS.6: 12 residues within 4Å: Chain A: V.144, G.147, L.230, A.233, I.234, D.237, A.238 Chain D: I.137, A.140, S.143, V.144, A.238 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: A:L.230, D:I.137 Hydrogen bonds: A:V.144 CPS.13: 11 residues within 4Å: Chain B: V.144, G.147, L.230, A.233, I.234, V.236, D.237, A.238, I.241 Chain C: A.140, V.144 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.230, B:I.241 Hydrogen bonds: B:V.144 CPS.14: 4 residues within 4Å: Chain B: M.19, Y.20, L.21, R.22 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:Y.20, B:Y.20 Salt bridges: B:R.22 CPS.29: 10 residues within 4Å: Chain B: A.140, V.144, A.238 Chain D: V.144, G.147, A.233, I.234, D.237, A.238, I.241 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:I.241 Hydrogen bonds: D:V.144, D:G.147

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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