SMTL ID : 7u2x.1

Cryo-EM structure of the pancreatic ATP-sensitive potassium channel in the presence of carbamazepine and ATP with Kir6.2-CTD in the down conformation

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-1-mer

Ligands

8 x PTY: PHOSPHATIDYLETHANOLAMINE(Non-covalent)

PTY.1: 2 residues within 4Å: Chain A: E.141, P.143 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.141 PTY.3: 2 residues within 4Å: Chain A: L.92 Chain B: L.145 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:L.145, A:L.92, A:L.92 PTY.4: 5 residues within 4Å: Chain A: S.118 Chain B: L.3 Chain E: E.141, P.143 Ligands: POV.2 No protein-ligand interaction detected (PLIP) PTY.5: 12 residues within 4Å: Chain B: W.65, F.79, L.82, V.121, H.125, T.129, V.222, N.223, L.225, S.226, W.231 Ligands: P5S.8 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:F.79, B:L.82, B:V.121, B:W.231 Hydrogen bonds: B:T.129, B:T.129, B:N.223 Salt bridges: B:H.125, B:H.125 PTY.6: 5 residues within 4Å: Chain B: I.89, I.93, F.114, Y.356, L.1272 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:I.89, B:F.114, B:Y.356 PTY.7: 3 residues within 4Å: Chain B: A.315, L.318, L.361 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:A.315, B:L.318, B:L.361, B:L.361 PTY.12: 5 residues within 4Å: Chain C: E.141, P.143, I.150 Chain D: L.80 Ligands: POV.14 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:I.150, D:L.80 Hydrogen bonds: C:E.141 PTY.15: 3 residues within 4Å: Chain D: P.143 Chain E: L.80 Ligands: POV.16 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain E Hydrophobic interactions: D:P.143, E:L.80

5 x POV: (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate(Non-covalent)

POV.2: 11 residues within 4Å: Chain A: L.84, M.88, W.91, H.115, S.116, F.117 Chain B: L.3, F.5, Y.15, M.112 Ligands: PTY.4 6 PLIP interactions: 1 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:F.5, A:W.91, A:F.117 Hydrophobic interactions: A:L.84, A:L.84, A:F.117 POV.10: 8 residues within 4Å: Chain B: H.67, F.68, P.69, H.71, N.72, I.76, L.184 Ligands: P5S.8 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:I.76 Hydrogen bonds: B:H.71, B:N.72 POV.13: 7 residues within 4Å: Chain C: L.84, M.88, W.91, L.100, H.115, S.116, F.117 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:L.84 Hydrogen bonds: C:W.91, C:F.117 POV.14: 7 residues within 4Å: Chain D: L.84, M.88, W.91, H.115, S.116, F.117 Ligands: PTY.12 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:L.84, D:L.84 Hydrogen bonds: D:W.91, D:F.117 POV.16: 7 residues within 4Å: Chain E: L.84, M.88, W.91, H.115, S.116, F.117 Ligands: PTY.15 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:L.84 Hydrogen bonds: E:F.117

1 x P5S: O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine(Non-covalent)

P5S.8: 16 residues within 4Å: Chain B: I.76, F.79, F.83, P.220, L.225, G.228, R.297, R.298, F.305, L.368, T.371, F.372, A.375, Y.1254 Ligands: PTY.5, POV.10 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:I.76, B:F.79, B:F.83, B:L.225, B:F.305, B:F.305, B:F.305, B:T.371, B:F.372, B:F.372, B:A.375, B:Y.1254 Salt bridges: B:R.297, B:R.298

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.9: 11 residues within 4Å: Chain B: T.404, S.405, N.406, W.688, G.716, C.717, G.718, K.719, S.720, S.721, Q.775 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:T.404, B:N.406, B:G.716, B:G.718, B:K.719, B:S.720, B:S.721, B:Q.775 pi-Stacking: B:W.688, B:W.688

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.11: 1 residues within 4Å: Chain B: N.10 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.10

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sung, M.W. et al., Ligand-mediated Structural Dynamics of a Mammalian Pancreatic K ATP Channel. J.Mol.Biol. (2022)

Release Date

2022-08-31

Peptides

ATP-sensitive inward rectifier potassium channel 11: ACDE
ATP-binding cassette sub-family C member 8: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

D
C

E
D

B
E

Membrane

We predict this structure to be a membrane protein.
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ATP-sensitive inward rectifier potassium channel 11

ATP-binding cassette sub-family C member 8

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