SMTL ID : 7w4p.1

The structure of KATP H175K mutant in closed state

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-mer

Ligands

8 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 14 residues within 4Å: Chain A: I.182, F.183, S.184, K.185, L.205, Y.330, S.331, F.333, G.334, N.335 Chain G: N.48, I.49, R.50, R.54 9 PLIP interactions: 3 interactions with chain G, 6 interactions with chain A Hydrogen bonds: G:N.48, G:R.50, G:R.54, A:K.185, A:S.331, A:F.333, A:G.334 Salt bridges: A:K.185 pi-Stacking: A:F.333 ADP.2: 13 residues within 4Å: Chain B: R.1111, E.1114, Y.1354, V.1361, R.1380, T.1381, G.1382, S.1383, G.1384, K.1385, S.1386, S.1387 Ligands: MG.4 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:R.1111, B:E.1114, B:G.1382, B:S.1383, B:G.1384, B:K.1385, B:S.1386, B:S.1387 Salt bridges: B:K.1385 pi-Stacking: B:Y.1354, B:Y.1354 ADP.7: 14 residues within 4Å: Chain A: N.48, I.49, R.50, R.54 Chain C: I.182, F.183, S.184, K.185, L.205, Y.330, S.331, F.333, G.334, N.335 9 PLIP interactions: 3 interactions with chain A, 6 interactions with chain C Hydrogen bonds: A:N.48, A:R.50, A:R.54, C:K.185, C:S.331, C:F.333, C:G.334 Salt bridges: C:K.185 pi-Stacking: C:F.333 ADP.8: 13 residues within 4Å: Chain D: R.1111, E.1114, Y.1354, V.1361, R.1380, T.1381, G.1382, S.1383, G.1384, K.1385, S.1386, S.1387 Ligands: MG.10 11 PLIP interactions: 11 interactions with chain D Hydrogen bonds: D:R.1111, D:E.1114, D:G.1382, D:S.1383, D:G.1384, D:K.1385, D:S.1386, D:S.1387 Salt bridges: D:K.1385 pi-Stacking: D:Y.1354, D:Y.1354 ADP.13: 14 residues within 4Å: Chain C: N.48, I.49, R.50, R.54 Chain E: I.182, F.183, S.184, K.185, L.205, Y.330, S.331, F.333, G.334, N.335 9 PLIP interactions: 3 interactions with chain C, 6 interactions with chain E Hydrogen bonds: C:N.48, C:R.50, C:R.54, E:K.185, E:S.331, E:F.333, E:G.334 Salt bridges: E:K.185 pi-Stacking: E:F.333 ADP.14: 13 residues within 4Å: Chain F: R.1111, E.1114, Y.1354, V.1361, R.1380, T.1381, G.1382, S.1383, G.1384, K.1385, S.1386, S.1387 Ligands: MG.16 11 PLIP interactions: 11 interactions with chain F Hydrogen bonds: F:R.1111, F:E.1114, F:G.1382, F:S.1383, F:G.1384, F:K.1385, F:S.1386, F:S.1387 Salt bridges: F:K.1385 pi-Stacking: F:Y.1354, F:Y.1354 ADP.19: 14 residues within 4Å: Chain E: N.48, I.49, R.50, R.54 Chain G: I.182, F.183, S.184, K.185, L.205, Y.330, S.331, F.333, G.334, N.335 9 PLIP interactions: 3 interactions with chain E, 6 interactions with chain G Hydrogen bonds: E:N.48, E:R.50, E:R.54, G:K.185, G:S.331, G:F.333, G:G.334 Salt bridges: G:K.185 pi-Stacking: G:F.333 ADP.20: 13 residues within 4Å: Chain H: R.1111, E.1114, Y.1354, V.1361, R.1380, T.1381, G.1382, S.1383, G.1384, K.1385, S.1386, S.1387 Ligands: MG.22 11 PLIP interactions: 11 interactions with chain H Hydrogen bonds: H:R.1111, H:E.1114, H:G.1382, H:S.1383, H:G.1384, H:K.1385, H:S.1386, H:S.1387 Salt bridges: H:K.1385 pi-Stacking: H:Y.1354, H:Y.1354

8 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain B: S.720, Q.775, D.854 Ligands: ATP.6 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.854 MG.4: 3 residues within 4Å: Chain B: S.1386, E.1507 Ligands: ADP.2 No protein-ligand interaction detected (PLIP) MG.9: 4 residues within 4Å: Chain D: S.720, Q.775, D.854 Ligands: ATP.12 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:D.854 MG.10: 3 residues within 4Å: Chain D: S.1386, E.1507 Ligands: ADP.8 No protein-ligand interaction detected (PLIP) MG.15: 4 residues within 4Å: Chain F: S.720, Q.775, D.854 Ligands: ATP.18 1 PLIP interactions: 1 interactions with chain F Metal complexes: F:D.854 MG.16: 3 residues within 4Å: Chain F: S.1386, E.1507 Ligands: ADP.14 No protein-ligand interaction detected (PLIP) MG.21: 4 residues within 4Å: Chain H: S.720, Q.775, D.854 Ligands: ATP.24 1 PLIP interactions: 1 interactions with chain H Metal complexes: H:D.854 MG.22: 3 residues within 4Å: Chain H: S.1386, E.1507 Ligands: ADP.20 No protein-ligand interaction detected (PLIP)

4 x E2H: 6-chloranyl-~{N}-(1-methylcyclopropyl)-1,1-bis(oxidanylidene)-4~{H}-thieno[3,2-e][1,2,4]thiadiazin-3-amine(Non-covalent)

E2H.5: 10 residues within 4Å: Chain B: I.552, V.555, L.580, H.584, L.1027, I.1030, D.1031, C.1072, T.1286, M.1290 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:L.580, B:H.584, B:I.1030, B:T.1286 Hydrogen bonds: B:H.584, B:D.1031 Halogen bonds: B:C.1072 E2H.11: 10 residues within 4Å: Chain D: I.552, V.555, L.580, H.584, L.1027, I.1030, D.1031, C.1072, T.1286, M.1290 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:L.580, D:H.584, D:I.1030, D:T.1286 Hydrogen bonds: D:H.584, D:D.1031 Halogen bonds: D:C.1072 E2H.17: 10 residues within 4Å: Chain F: I.552, V.555, L.580, H.584, L.1027, I.1030, D.1031, C.1072, T.1286, M.1290 7 PLIP interactions: 7 interactions with chain F Hydrophobic interactions: F:L.580, F:H.584, F:I.1030, F:T.1286 Hydrogen bonds: F:H.584, F:D.1031 Halogen bonds: F:C.1072 E2H.23: 10 residues within 4Å: Chain H: I.552, V.555, L.580, H.584, L.1027, I.1030, D.1031, C.1072, T.1286, M.1290 7 PLIP interactions: 7 interactions with chain H Hydrophobic interactions: H:L.580, H:H.584, H:I.1030, H:T.1286 Hydrogen bonds: H:H.584, H:D.1031 Halogen bonds: H:C.1072

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

ATP.6: 21 residues within 4Å: Chain B: S.408, M.409, W.688, Q.714, V.715, G.716, C.717, G.718, K.719, S.720, S.721, Q.775, H.889, E.1480, N.1481, F.1482, S.1483, Q.1484, G.1485, Q.1486 Ligands: MG.3 21 PLIP interactions: 21 interactions with chain B Hydrogen bonds: B:S.408, B:S.408, B:G.716, B:G.716, B:C.717, B:G.718, B:G.718, B:K.719, B:S.720, B:S.721, B:Q.775, B:S.1483, B:Q.1484, B:G.1485, B:Q.1486, B:Q.1486 Salt bridges: B:K.719, B:K.719, B:H.889 pi-Stacking: B:W.688, B:W.688 ATP.12: 21 residues within 4Å: Chain D: S.408, M.409, W.688, Q.714, V.715, G.716, C.717, G.718, K.719, S.720, S.721, Q.775, H.889, E.1480, N.1481, F.1482, S.1483, Q.1484, G.1485, Q.1486 Ligands: MG.9 21 PLIP interactions: 21 interactions with chain D Hydrogen bonds: D:S.408, D:S.408, D:G.716, D:G.716, D:C.717, D:G.718, D:G.718, D:K.719, D:S.720, D:S.721, D:Q.775, D:S.1483, D:Q.1484, D:G.1485, D:Q.1486, D:Q.1486 Salt bridges: D:K.719, D:K.719, D:H.889 pi-Stacking: D:W.688, D:W.688 ATP.18: 21 residues within 4Å: Chain F: S.408, M.409, W.688, Q.714, V.715, G.716, C.717, G.718, K.719, S.720, S.721, Q.775, H.889, E.1480, N.1481, F.1482, S.1483, Q.1484, G.1485, Q.1486 Ligands: MG.15 21 PLIP interactions: 21 interactions with chain F Hydrogen bonds: F:S.408, F:S.408, F:G.716, F:G.716, F:C.717, F:G.718, F:G.718, F:K.719, F:S.720, F:S.721, F:Q.775, F:S.1483, F:Q.1484, F:G.1485, F:Q.1486, F:Q.1486 Salt bridges: F:K.719, F:K.719, F:H.889 pi-Stacking: F:W.688, F:W.688 ATP.24: 21 residues within 4Å: Chain H: S.408, M.409, W.688, Q.714, V.715, G.716, C.717, G.718, K.719, S.720, S.721, Q.775, H.889, E.1480, N.1481, F.1482, S.1483, Q.1484, G.1485, Q.1486 Ligands: MG.21 21 PLIP interactions: 21 interactions with chain H Hydrogen bonds: H:S.408, H:S.408, H:G.716, H:G.716, H:C.717, H:G.718, H:G.718, H:K.719, H:S.720, H:S.721, H:Q.775, H:S.1483, H:Q.1484, H:G.1485, H:Q.1486, H:Q.1486 Salt bridges: H:K.719, H:K.719, H:H.889 pi-Stacking: H:W.688, H:W.688

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, M. et al., Structural insights into the mechanism of pancreatic K ATP channel regulation by nucleotides. Nat Commun (2022)

Release Date

2022-06-01

Peptides

ATP-sensitive inward rectifier potassium channel 11: ACEG
ATP-binding cassette sub-family C member 8 isoform X2: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

G
G

B
B

D
D

F
F

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 isoform X2

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