SMTL ID : 4hqj.2 (1 other biounit)

Crystal structure of Na+,K+-ATPase in the Na+-bound state

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 4.30 Å

Oligo State

hetero-oligomer

Ligands

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

ADP.1: 20 residues within 4Å: Chain A: T.376, D.448, S.450, E.451, F.480, S.482, Q.487, K.506, G.507, A.508, R.549, L.551, T.615, G.616, D.617, H.618, R.690, N.718 Ligands: ALF.2, MG.3 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:T.376, A:D.448, A:S.450, A:R.549, A:G.616, A:G.616, A:H.618, A:R.690, A:R.690, A:N.718 pi-Stacking: A:F.480, A:F.480

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.2: 11 residues within 4Å: Chain A: D.374, K.375, T.376, T.615, G.616, D.617, K.696, D.715, N.718 Ligands: ADP.1, MG.3 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.374

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: D.374, T.376, D.715 Ligands: ADP.1, ALF.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.374, A:T.376, A:D.715

3 x NA: SODIUM ION(Non-functional Binders)

NA.4: 6 residues within 4Å: Chain A: V.327, A.328, V.330, P.331, E.332, D.809 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.332, A:D.809 NA.5: 6 residues within 4Å: Chain A: A.328, S.780, N.781, E.784, D.809, D.813 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.809, A:D.813 NA.6: 6 residues within 4Å: Chain A: Y.776, T.779, S.780, Q.859, Q.928, D.931 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.779, A:Q.928, A:D.931

3 x CLR: CHOLESTEROL(Non-covalent)

CLR.7: 7 residues within 4Å: Chain A: W.929, L.956, T.960, Y.968, W.986 Chain C: V.26, F.33 12 PLIP interactions: 9 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:W.929, A:W.929, A:W.929, A:W.929, A:W.929, A:L.956, A:T.960, A:W.986, A:W.986, C:F.33, C:F.33 Hydrogen bonds: C:V.26 CLR.8: 7 residues within 4Å: Chain A: F.865, V.869, E.873, T.984, C.988, L.994 Chain B: M.57 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:M.57, A:F.865, A:L.994 Hydrogen bonds: A:T.984 CLR.9: 5 residues within 4Å: Chain A: S.849, Y.852, M.857 Chain B: Y.39, Y.43 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.852, B:Y.39, B:Y.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nyblom, M. et al., Crystal structure of Na+, K(+)-ATPase in the Na(+)-bound state. Science (2013)

Release Date

2013-10-02

Peptides

Sodium/potassium-transporting ATPase subunit alpha-1: A
Sodium/potassium-transporting ATPase subunit beta-1: B
Na+/K+ ATPase gamma subunit transcript variant a: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
E

Membrane

We predict this structure to be a membrane protein.
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Sodium/potassium-transporting ATPase subunit alpha-1

Sodium/potassium-transporting ATPase subunit beta-1

Na+/K+ ATPase gamma subunit transcript variant a

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