SMTL ID : 6r7x.1

CryoEM structure of calcium-bound human TMEM16K / Anoctamin 10 in detergent (2mM Ca2+, closed form)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

6 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: N.444, Q.445, E.448, E.500, E.529 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.448, A:E.500, A:E.500, A:E.529, A:E.529 CA.2: 7 residues within 4Å: Chain A: Y.211, E.448, D.497, E.500, E.529, D.533, K.536 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.497, A:E.500, A:E.529, A:D.533, A:D.533 CA.3: 4 residues within 4Å: Chain A: E.259, A.610, I.613, D.615 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.259, A:A.610, A:I.613, A:D.615 CA.16: 5 residues within 4Å: Chain B: N.444, Q.445, E.448, E.500, E.529 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.448, B:E.500, B:E.500, B:E.529, B:E.529 CA.17: 7 residues within 4Å: Chain B: Y.211, E.448, D.497, E.500, E.529, D.533, K.536 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.497, B:E.500, B:E.529, B:D.533, B:D.533 CA.18: 4 residues within 4Å: Chain B: E.259, A.610, I.613, D.615 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.259, B:A.610, B:I.613, B:D.615

2 x PC1: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)

PC1.4: 17 residues within 4Å: Chain A: I.314, Y.315, L.319, V.322, L.326, N.398, H.399, L.402, K.403, L.405, F.409, L.410, F.502, V.554, A.558 Chain B: F.611 Ligands: UMQ.10 14 PLIP interactions: 13 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.314, A:Y.315, A:L.319, A:V.322, A:L.326, A:L.402, A:K.403, A:L.405, A:L.410, A:F.502 Hydrogen bonds: A:N.398 Salt bridges: A:H.399, A:H.399 pi-Cation interactions: B:F.611 PC1.19: 17 residues within 4Å: Chain A: F.611 Chain B: I.314, Y.315, L.319, V.322, L.326, N.398, H.399, L.402, K.403, L.405, F.409, L.410, F.502, V.554, A.558 Ligands: UMQ.25 14 PLIP interactions: 13 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:I.314, B:Y.315, B:L.319, B:V.322, B:L.326, B:L.402, B:K.403, B:L.405, B:L.410, B:F.502 Hydrogen bonds: B:N.398 Salt bridges: B:H.399, B:H.399 pi-Cation interactions: A:F.611

20 x UMQ: UNDECYL-MALTOSIDE(Non-covalent)

UMQ.5: 15 residues within 4Å: Chain A: K.424, V.568, C.571, A.572, G.575, M.576, P.578, N.581, K.588, I.592, V.595, V.596 Chain B: L.593, H.600 Ligands: UMQ.15 Ligand excluded by PLIP UMQ.6: 5 residues within 4Å: Chain A: R.263, L.605, A.612, P.614 Ligands: UMQ.8 Ligand excluded by PLIP UMQ.7: 10 residues within 4Å: Chain A: K.180, E.183, Y.187, R.189, F.450, Y.453, R.457, T.528, L.535, R.539 Ligand excluded by PLIP UMQ.8: 4 residues within 4Å: Chain A: L.260, R.263, L.605 Ligands: UMQ.6 Ligand excluded by PLIP UMQ.9: 5 residues within 4Å: Chain A: F.421, V.422, K.424 Ligands: UMQ.10, UMQ.15 Ligand excluded by PLIP UMQ.10: 7 residues within 4Å: Chain A: L.410, F.417, Y.418 Ligands: PC1.4, UMQ.9, UMQ.11, UMQ.15 Ligand excluded by PLIP UMQ.11: 4 residues within 4Å: Chain A: L.557, E.560, F.607 Ligands: UMQ.10 Ligand excluded by PLIP UMQ.12: 2 residues within 4Å: Chain A: C.325, F.328 Ligand excluded by PLIP UMQ.13: 2 residues within 4Å: Chain A: A.434, I.438 Ligand excluded by PLIP UMQ.14: 13 residues within 4Å: Chain A: S.587, A.589, L.593 Chain B: F.421, K.424, T.569, A.572, M.576, K.588, I.592 Ligands: UMQ.20, UMQ.24, UMQ.25 Ligand excluded by PLIP UMQ.15: 13 residues within 4Å: Chain A: F.421, K.424, T.569, A.572, M.576, K.588, I.592 Chain B: S.587, A.589, L.593 Ligands: UMQ.5, UMQ.9, UMQ.10 Ligand excluded by PLIP UMQ.20: 15 residues within 4Å: Chain A: L.593, H.600 Chain B: K.424, V.568, C.571, A.572, G.575, M.576, P.578, N.581, K.588, I.592, V.595, V.596 Ligands: UMQ.14 Ligand excluded by PLIP UMQ.21: 5 residues within 4Å: Chain B: R.263, L.605, A.612, P.614 Ligands: UMQ.23 Ligand excluded by PLIP UMQ.22: 10 residues within 4Å: Chain B: K.180, E.183, Y.187, R.189, F.450, Y.453, R.457, T.528, L.535, R.539 Ligand excluded by PLIP UMQ.23: 4 residues within 4Å: Chain B: L.260, R.263, L.605 Ligands: UMQ.21 Ligand excluded by PLIP UMQ.24: 5 residues within 4Å: Chain B: F.421, V.422, K.424 Ligands: UMQ.14, UMQ.25 Ligand excluded by PLIP UMQ.25: 7 residues within 4Å: Chain B: L.410, F.417, Y.418 Ligands: UMQ.14, PC1.19, UMQ.24, UMQ.26 Ligand excluded by PLIP UMQ.26: 4 residues within 4Å: Chain B: L.557, E.560, F.607 Ligands: UMQ.25 Ligand excluded by PLIP UMQ.27: 2 residues within 4Å: Chain B: C.325, F.328 Ligand excluded by PLIP UMQ.28: 2 residues within 4Å: Chain B: A.434, I.438 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bushell, S.R. et al., The structural basis of lipid scrambling and inactivation in the endoplasmic reticulum scramblase TMEM16K. Nat Commun (2019)

Release Date

2019-05-01

Peptides

Anoctamin-10: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Anoctamin-10

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