SMTL ID : 6bwj.1

Crystal structure of the TRPV2 ion channel in complex with RTx

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

homo-tetramer

Ligands

4 x 6EU: resiniferatoxin(Non-covalent)

6EU.1: 29 residues within 4Å: Chain A: Y.468, S.469, L.472, L.475, S.500, V.503, M.504, T.507, N.508, L.510, Y.511, R.514, S.523, V.524, I.526, E.527, I.530, L.531, L.534, L.535, L.538, Q.660 Chain D: F.544, F.548, L.622, L.624, A.625, L.628, L.629 11 PLIP interactions: 10 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: A:L.472, A:T.507, A:L.510, A:I.530, A:L.538, D:L.629 Hydrogen bonds: A:Y.468, A:T.507, A:R.514, A:R.514 pi-Stacking: A:Y.468 6EU.4: 24 residues within 4Å: Chain A: F.544, F.548, L.622, A.625, L.628, L.629 Chain B: F.464, Y.468, S.469, L.472, L.475, V.503, M.504, T.507, N.508, L.510, Y.511, R.514, S.523, I.526, E.527, I.530, L.534, Q.660 11 PLIP interactions: 4 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:F.548, A:L.622, A:A.625, A:L.628, B:F.464, B:Y.468, B:L.472, B:L.510 Hydrogen bonds: B:Y.468, B:S.469, B:R.514 6EU.5: 29 residues within 4Å: Chain B: F.544, F.548, L.622, L.624, A.625, L.628, L.629 Chain C: Y.468, S.469, L.472, L.475, S.500, V.503, M.504, T.507, N.508, L.510, Y.511, R.514, S.523, V.524, I.526, E.527, I.530, L.531, L.534, L.535, L.538, Q.660 12 PLIP interactions: 11 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:L.472, C:T.507, C:L.510, C:I.530, C:L.538, B:L.629 Hydrogen bonds: C:Y.468, C:T.507, C:R.514, C:R.514, C:E.527 pi-Stacking: C:Y.468 6EU.8: 24 residues within 4Å: Chain C: F.544, F.548, L.622, A.625, L.628, L.629 Chain D: F.464, Y.468, S.469, L.472, L.475, V.503, M.504, T.507, N.508, L.510, Y.511, R.514, S.523, I.526, E.527, I.530, L.534, Q.660 11 PLIP interactions: 7 interactions with chain D, 4 interactions with chain C Hydrophobic interactions: D:F.464, D:Y.468, D:L.472, D:L.510, C:F.548, C:L.622, C:A.625, C:L.628 Hydrogen bonds: D:Y.468, D:S.469, D:R.514

4 x CA: CALCIUM ION(Non-functional Binders)

CA.2: 1 residues within 4Å: Ligands: CA.6 No protein-ligand interaction detected (PLIP) CA.3: 3 residues within 4Å: Chain B: L.634 Chain D: L.634 Ligands: CA.7 No protein-ligand interaction detected (PLIP) CA.6: 1 residues within 4Å: Ligands: CA.2 No protein-ligand interaction detected (PLIP) CA.7: 3 residues within 4Å: Chain B: L.634 Chain D: L.634 Ligands: CA.3 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zubcevic, L. et al., Conformational plasticity in the selectivity filter of the TRPV2 ion channel. Nat. Struct. Mol. Biol. (2018)

Release Date

2018-05-02

Peptides

Transient receptor potential cation channel subfamily V member 2: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Membrane

We predict this structure to be a membrane protein.
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Transient receptor potential cation channel subfamily V member 2