SMTL ID : 6baa.1

Cryo-EM structure of the pancreatic beta-cell KATP channel bound to ATP and glibenclamide

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-mer

Ligands

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

ATP.1: 12 residues within 4Å: Chain A: I.182, F.183, S.184, K.185, L.205, Y.330, S.331, F.333, G.334 Chain D: N.48, I.49, R.50 8 PLIP interactions: 4 interactions with chain A, 4 interactions with chain D Hydrogen bonds: A:K.185, A:G.334, D:N.48, D:R.50 Salt bridges: A:K.185, A:K.185, D:R.50 pi-Cation interactions: D:R.50 ATP.2: 12 residues within 4Å: Chain A: N.48, I.49, R.50 Chain B: I.182, F.183, S.184, K.185, L.205, Y.330, S.331, F.333, G.334 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:K.185, B:G.334, A:N.48, A:R.50 Salt bridges: B:K.185, B:K.185, A:R.50 pi-Cation interactions: A:R.50 ATP.3: 12 residues within 4Å: Chain B: N.48, I.49, R.50 Chain C: I.182, F.183, S.184, K.185, L.205, Y.330, S.331, F.333, G.334 8 PLIP interactions: 4 interactions with chain C, 4 interactions with chain B Hydrogen bonds: C:K.185, C:G.334, B:N.48, B:R.50 Salt bridges: C:K.185, C:K.185, B:R.50 pi-Cation interactions: B:R.50 ATP.4: 12 residues within 4Å: Chain C: N.48, I.49, R.50 Chain D: I.182, F.183, S.184, K.185, L.205, Y.330, S.331, F.333, G.334 8 PLIP interactions: 4 interactions with chain D, 4 interactions with chain C Hydrogen bonds: D:K.185, D:G.334, C:N.48, C:R.50 Salt bridges: D:K.185, D:K.185, C:R.50 pi-Cation interactions: C:R.50

4 x GBM: 5-chloro-N-(2-{4-[(cyclohexylcarbamoyl)sulfamoyl]phenyl}ethyl)-2-methoxybenzamide(Non-covalent)

GBM.5: 15 residues within 4Å: Chain E: R.306, Y.377, I.381, M.429, W.430, F.433, L.434, N.437, M.441, T.588, L.592, S.1238, T.1242, N.1245, R.1246 16 PLIP interactions: 16 interactions with chain E Hydrophobic interactions: E:Y.377, E:Y.377, E:I.381, E:W.430, E:W.430, E:F.433, E:F.433, E:T.588, E:L.592, E:L.592 Hydrogen bonds: E:Y.377, E:T.1242, E:T.1242, E:T.1242, E:R.1246, E:R.1246 GBM.6: 15 residues within 4Å: Chain F: R.306, Y.377, I.381, M.429, W.430, F.433, L.434, N.437, M.441, T.588, L.592, S.1238, T.1242, N.1245, R.1246 16 PLIP interactions: 16 interactions with chain F Hydrophobic interactions: F:Y.377, F:Y.377, F:I.381, F:W.430, F:W.430, F:F.433, F:F.433, F:T.588, F:L.592, F:L.592 Hydrogen bonds: F:Y.377, F:T.1242, F:T.1242, F:T.1242, F:R.1246, F:R.1246 GBM.7: 15 residues within 4Å: Chain G: R.306, Y.377, I.381, M.429, W.430, F.433, L.434, N.437, M.441, T.588, L.592, S.1238, T.1242, N.1245, R.1246 16 PLIP interactions: 16 interactions with chain G Hydrophobic interactions: G:Y.377, G:Y.377, G:I.381, G:W.430, G:W.430, G:F.433, G:F.433, G:T.588, G:L.592, G:L.592 Hydrogen bonds: G:Y.377, G:T.1242, G:T.1242, G:T.1242, G:R.1246, G:R.1246 GBM.8: 15 residues within 4Å: Chain H: R.306, Y.377, I.381, M.429, W.430, F.433, L.434, N.437, M.441, T.588, L.592, S.1238, T.1242, N.1245, R.1246 16 PLIP interactions: 16 interactions with chain H Hydrophobic interactions: H:Y.377, H:Y.377, H:I.381, H:W.430, H:W.430, H:F.433, H:F.433, H:T.588, H:L.592, H:L.592 Hydrogen bonds: H:Y.377, H:T.1242, H:T.1242, H:T.1242, H:R.1246, H:R.1246

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Martin, G.M. et al., Anti-diabetic drug binding site in a mammalian KATPchannel revealed by Cryo-EM. Elife (2017)

Release Date

2017-11-01

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

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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