SMTL ID : 6c3p.1

Cryo-EM structure of human KATP bound to ATP and ADP in propeller form

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-mer

Ligands

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

ATP.1: 16 residues within 4Å: Chain A: K.45, I.188, F.189, S.190, K.191, L.211, Y.336, S.337, K.338, F.339, G.340, N.341 Chain C: N.54, I.55, R.56, E.57 16 PLIP interactions: 6 interactions with chain C, 10 interactions with chain A Hydrogen bonds: C:N.54, C:R.56, C:R.56, C:E.57, A:K.45, A:K.45, A:K.191, A:K.338, A:F.339, A:G.340, A:N.341, A:N.341, A:N.341, A:N.341 Salt bridges: C:R.56, C:R.56 ATP.2: 16 residues within 4Å: Chain A: N.54, I.55, R.56, E.57 Chain B: K.45, I.188, F.189, S.190, K.191, L.211, Y.336, S.337, K.338, F.339, G.340, N.341 17 PLIP interactions: 10 interactions with chain B, 7 interactions with chain A Hydrogen bonds: B:K.45, B:K.45, B:K.191, B:K.338, B:F.339, B:G.340, B:N.341, B:N.341, B:N.341, B:N.341, A:N.54, A:R.56, A:R.56, A:E.57 Salt bridges: A:R.56, A:R.56, A:R.56 ATP.3: 16 residues within 4Å: Chain B: N.54, I.55, R.56, E.57 Chain D: K.45, I.188, F.189, S.190, K.191, L.211, Y.336, S.337, K.338, F.339, G.340, N.341 16 PLIP interactions: 10 interactions with chain D, 6 interactions with chain B Hydrogen bonds: D:K.45, D:K.45, D:K.191, D:K.338, D:F.339, D:G.340, D:N.341, D:N.341, D:N.341, D:N.341, B:N.54, B:R.56, B:R.56, B:E.57 Salt bridges: B:R.56, B:R.56 ATP.4: 16 residues within 4Å: Chain C: K.45, I.188, F.189, S.190, K.191, L.211, Y.336, S.337, K.338, F.339, G.340, N.341 Chain D: N.54, I.55, R.56, E.57 16 PLIP interactions: 10 interactions with chain C, 6 interactions with chain D Hydrogen bonds: C:K.45, C:K.45, C:K.191, C:K.338, C:F.339, C:G.340, C:N.341, C:N.341, C:N.341, C:N.341, D:N.54, D:R.56, D:R.56, D:E.57 Salt bridges: D:R.56, D:R.56 ATP.8: 19 residues within 4Å: Chain E: S.408, M.409, W.688, V.715, G.716, C.717, G.718, K.719, S.720, S.721, Q.774, H.888, E.1479, N.1480, F.1481, S.1482, Q.1483, G.1484 Ligands: MG.6 16 PLIP interactions: 16 interactions with chain E Hydrogen bonds: E:S.408, E:S.408, E:G.716, E:G.716, E:G.718, E:K.719, E:S.720, E:S.721, E:S.721, E:Q.774, E:S.1482, E:Q.1483, E:G.1484 Salt bridges: E:H.888 pi-Stacking: E:W.688, E:W.688 ATP.12: 19 residues within 4Å: Chain F: S.408, M.409, W.688, V.715, G.716, C.717, G.718, K.719, S.720, S.721, Q.774, H.888, E.1479, N.1480, F.1481, S.1482, Q.1483, G.1484 Ligands: MG.10 16 PLIP interactions: 16 interactions with chain F Hydrogen bonds: F:S.408, F:S.408, F:G.716, F:G.716, F:G.718, F:K.719, F:S.720, F:S.721, F:S.721, F:Q.774, F:S.1482, F:Q.1483, F:G.1484 Salt bridges: F:H.888 pi-Stacking: F:W.688, F:W.688 ATP.16: 19 residues within 4Å: Chain G: S.408, M.409, W.688, V.715, G.716, C.717, G.718, K.719, S.720, S.721, Q.774, H.888, E.1479, N.1480, F.1481, S.1482, Q.1483, G.1484 Ligands: MG.14 16 PLIP interactions: 16 interactions with chain G Hydrogen bonds: G:S.408, G:S.408, G:G.716, G:G.716, G:G.718, G:K.719, G:S.720, G:S.721, G:S.721, G:Q.774, G:S.1482, G:Q.1483, G:G.1484 Salt bridges: G:H.888 pi-Stacking: G:W.688, G:W.688 ATP.20: 19 residues within 4Å: Chain H: S.408, M.409, W.688, V.715, G.716, C.717, G.718, K.719, S.720, S.721, Q.774, H.888, E.1479, N.1480, F.1481, S.1482, Q.1483, G.1484 Ligands: MG.18 16 PLIP interactions: 16 interactions with chain H Hydrogen bonds: H:S.408, H:S.408, H:G.716, H:G.716, H:G.718, H:K.719, H:S.720, H:S.721, H:S.721, H:Q.774, H:S.1482, H:Q.1483, H:G.1484 Salt bridges: H:H.888 pi-Stacking: H:W.688, H:W.688

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

ADP.5: 10 residues within 4Å: Chain E: Y.1353, V.1360, T.1380, G.1381, S.1382, G.1383, K.1384, S.1385, S.1386 Ligands: MG.7 12 PLIP interactions: 12 interactions with chain E Hydrogen bonds: E:Y.1353, E:G.1381, E:G.1381, E:G.1383, E:K.1384, E:S.1385, E:S.1385, E:S.1386, E:S.1386 Salt bridges: E:K.1384 pi-Stacking: E:Y.1353, E:Y.1353 ADP.9: 10 residues within 4Å: Chain F: Y.1353, V.1360, T.1380, G.1381, S.1382, G.1383, K.1384, S.1385, S.1386 Ligands: MG.11 12 PLIP interactions: 12 interactions with chain F Hydrogen bonds: F:Y.1353, F:G.1381, F:G.1381, F:G.1383, F:K.1384, F:S.1385, F:S.1385, F:S.1386, F:S.1386 Salt bridges: F:K.1384 pi-Stacking: F:Y.1353, F:Y.1353 ADP.13: 10 residues within 4Å: Chain G: Y.1353, V.1360, T.1380, G.1381, S.1382, G.1383, K.1384, S.1385, S.1386 Ligands: MG.15 12 PLIP interactions: 12 interactions with chain G Hydrogen bonds: G:Y.1353, G:G.1381, G:G.1381, G:G.1383, G:K.1384, G:S.1385, G:S.1385, G:S.1386, G:S.1386 Salt bridges: G:K.1384 pi-Stacking: G:Y.1353, G:Y.1353 ADP.17: 10 residues within 4Å: Chain H: Y.1353, V.1360, T.1380, G.1381, S.1382, G.1383, K.1384, S.1385, S.1386 Ligands: MG.19 12 PLIP interactions: 12 interactions with chain H Hydrogen bonds: H:Y.1353, H:G.1381, H:G.1381, H:G.1383, H:K.1384, H:S.1385, H:S.1385, H:S.1386, H:S.1386 Salt bridges: H:K.1384 pi-Stacking: H:Y.1353, H:Y.1353

8 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 3 residues within 4Å: Chain E: S.720, Q.774 Ligands: ATP.8 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:S.720 MG.7: 2 residues within 4Å: Chain E: S.1385 Ligands: ADP.5 No protein-ligand interaction detected (PLIP) MG.10: 3 residues within 4Å: Chain F: S.720, Q.774 Ligands: ATP.12 1 PLIP interactions: 1 interactions with chain F Metal complexes: F:S.720 MG.11: 2 residues within 4Å: Chain F: S.1385 Ligands: ADP.9 No protein-ligand interaction detected (PLIP) MG.14: 3 residues within 4Å: Chain G: S.720, Q.774 Ligands: ATP.16 1 PLIP interactions: 1 interactions with chain G Metal complexes: G:S.720 MG.15: 2 residues within 4Å: Chain G: S.1385 Ligands: ADP.13 No protein-ligand interaction detected (PLIP) MG.18: 3 residues within 4Å: Chain H: S.720, Q.774 Ligands: ATP.20 1 PLIP interactions: 1 interactions with chain H Metal complexes: H:S.720 MG.19: 2 residues within 4Å: Chain H: S.1385 Ligands: ADP.17 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, K.P.K. et al., Molecular structure of human KATP in complex with ATP and ADP. Elife (2017)

Release Date

2018-01-24

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
D

C
B

D
C

E
E

F
H

G
G

H
F

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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