SMTL ID : 5iwr.1

Structure of Transient Receptor Potential (TRP) channel TRPV6 in the presence of barium

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.85 Å

Oligo State

homo-tetramer

Ligands

16 x BA: BARIUM ION(Non-covalent)(Non-functional Binders)

BA.1: 7 residues within 4Å: Chain A: D.541 Chain B: D.541 Chain C: D.541 Chain D: D.541 Ligands: BA.6, BA.11, BA.16 Ligand excluded by PLIP BA.2: 7 residues within 4Å: Chain A: T.538 Chain B: T.538 Chain C: T.538 Chain D: T.538 Ligands: BA.7, BA.12, BA.17 Ligand excluded by PLIP BA.3: 3 residues within 4Å: Ligands: BA.8, BA.13, BA.18 Ligand excluded by PLIP BA.4: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP BA.6: 7 residues within 4Å: Chain A: D.541 Chain B: D.541 Chain C: D.541 Chain D: D.541 Ligands: BA.1, BA.11, BA.16 Ligand excluded by PLIP BA.7: 7 residues within 4Å: Chain A: T.538 Chain B: T.538 Chain C: T.538 Chain D: T.538 Ligands: BA.2, BA.12, BA.17 Ligand excluded by PLIP BA.8: 3 residues within 4Å: Ligands: BA.3, BA.13, BA.18 Ligand excluded by PLIP BA.9: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP BA.11: 7 residues within 4Å: Chain A: D.541 Chain B: D.541 Chain C: D.541 Chain D: D.541 Ligands: BA.1, BA.6, BA.16 Ligand excluded by PLIP BA.12: 7 residues within 4Å: Chain A: T.538 Chain B: T.538 Chain C: T.538 Chain D: T.538 Ligands: BA.2, BA.7, BA.17 Ligand excluded by PLIP BA.13: 3 residues within 4Å: Ligands: BA.3, BA.8, BA.18 Ligand excluded by PLIP BA.14: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP BA.16: 7 residues within 4Å: Chain A: D.541 Chain B: D.541 Chain C: D.541 Chain D: D.541 Ligands: BA.1, BA.6, BA.11 Ligand excluded by PLIP BA.17: 7 residues within 4Å: Chain A: T.538 Chain B: T.538 Chain C: T.538 Chain D: T.538 Ligands: BA.2, BA.7, BA.12 Ligand excluded by PLIP BA.18: 3 residues within 4Å: Ligands: BA.3, BA.8, BA.13 Ligand excluded by PLIP BA.19: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

4 x DTB: 6-(5-METHYL-2-OXO-IMIDAZOLIDIN-4-YL)-HEXANOIC ACID(Non-covalent)

DTB.5: 9 residues within 4Å: Chain A: Q.40, L.88, Y.115, V.151, N.158 Chain D: W.267, Y.269, L.272, E.633 13 PLIP interactions: 9 interactions with chain D, 4 interactions with chain A Hydrophobic interactions: D:W.267, D:W.267, D:Y.269, D:Y.269, D:Y.269, D:L.272, A:L.88, A:Y.115 Hydrogen bonds: D:E.633, A:Q.40, A:Q.40 pi-Stacking: D:W.267, D:W.267 DTB.10: 9 residues within 4Å: Chain B: Q.40, L.88, Y.115, V.151, N.158 Chain C: W.267, Y.269, L.272, E.633 13 PLIP interactions: 9 interactions with chain C, 4 interactions with chain B Hydrophobic interactions: C:W.267, C:W.267, C:Y.269, C:Y.269, C:Y.269, C:L.272, B:L.88, B:Y.115 Hydrogen bonds: C:E.633, B:Q.40, B:Q.40 pi-Stacking: C:W.267, C:W.267 DTB.15: 9 residues within 4Å: Chain A: W.267, Y.269, L.272, E.633 Chain C: Q.40, L.88, Y.115, V.151, N.158 13 PLIP interactions: 9 interactions with chain A, 4 interactions with chain C Hydrophobic interactions: A:W.267, A:W.267, A:Y.269, A:Y.269, A:Y.269, A:L.272, C:L.88, C:Y.115 Hydrogen bonds: A:E.633, C:Q.40, C:Q.40 pi-Stacking: A:W.267, A:W.267 DTB.20: 9 residues within 4Å: Chain B: W.267, Y.269, L.272, E.633 Chain D: Q.40, L.88, Y.115, V.151, N.158 13 PLIP interactions: 9 interactions with chain B, 4 interactions with chain D Hydrophobic interactions: B:W.267, B:W.267, B:Y.269, B:Y.269, B:Y.269, B:L.272, D:L.88, D:Y.115 Hydrogen bonds: B:E.633, D:Q.40, D:Q.40 pi-Stacking: B:W.267, B:W.267

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Saotome, K. et al., Crystal structure of the epithelial calcium channel TRPV6. Nature (2016)

Release Date

2016-06-15

Peptides

Transient receptor potential cation channel subfamily V member 6: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Membrane

We predict this structure to be a membrane protein.
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Transient receptor potential cation channel subfamily V member 6

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