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

Na,K-ATPase in the E2P state with bound ouabain and Mg2+ in the cation-binding site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.40 Å

Oligo State

hetero-1-1-1-mer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: D.374, T.376, D.715 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:T.376, A:T.376, A:D.715, A:D.715 MG.2: 2 residues within 4Å: Chain A: K.724, D.745 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.745, A:D.745 MG.3: 3 residues within 4Å: Chain A: N.781, E.784, D.809 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.784, A:D.809, H2O.1, H2O.1, H2O.1

1 x OBN: OUABAIN(Non-covalent)

OBN.4: 17 residues within 4Å: Chain A: Q.116, E.122, P.123, D.126, N.127, L.130, E.317, I.320, G.324, V.327, A.328, F.788, F.791, L.798, T.802, I.805, R.885 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.130, A:I.320, A:A.328, A:F.788, A:F.788, A:F.791, A:L.798 Hydrogen bonds: A:Q.116, A:E.122, A:D.126, A:E.317, A:E.317, A:T.802

2 x CLR: CHOLESTEROL(Non-covalent)

CLR.5: 11 residues within 4Å: Chain A: F.865, V.869, E.873, T.984, F.987, C.988, P.991 Chain B: I.49, T.53, V.56, T.60 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:I.49, B:T.53, B:V.56, B:V.56, A:V.869, A:P.991 CLR.10: 11 residues within 4Å: Chain A: W.929, T.960, Y.968, P.983, W.986, F.987, F.990 Chain C: V.26, G.29, G.30, F.33 14 PLIP interactions: 9 interactions with chain A, 5 interactions with chain C Hydrophobic interactions: A:W.929, A:T.960, A:Y.968, A:P.983, A:W.986, A:W.986, A:W.986, A:F.987, A:F.990, C:F.33, C:F.33, C:F.33 Hydrogen bonds: C:T.25, C:G.30

3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.6: 5 residues within 4Å: Chain B: N.158, E.165, E.228, F.230, Q.262 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.230 NAG.7: 3 residues within 4Å: Chain B: N.193, K.203, N.205 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.193, B:K.203 NAG.8: 1 residues within 4Å: Chain B: N.265 No protein-ligand interaction detected (PLIP)

1 x 17F: O-[(S)-({(2R)-2,3-bis[(9Z)-octadec-9-enoyloxy]propyl}oxy)(hydroxy)phosphoryl]-L-serine(Non-covalent)

17F.9: 10 residues within 4Å: Chain A: E.845, Y.852, E.1018 Chain B: T.28, S.31, W.32, I.35, L.36, Y.39, Y.43 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:E.1018, B:T.28, B:W.32 Hydrophobic interactions: B:Y.39

1 x CE1: O-DODECANYL OCTAETHYLENE GLYCOL(Non-covalent)

CE1.11: 5 residues within 4Å: Chain A: F.957 Chain C: D.22, T.25, V.26, F.33 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:F.957, C:F.33 Hydrogen bonds: C:D.22

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Laursen, M. et al., Crystal structure of the high-affinity Na+,K+-ATPase-ouabain complex with Mg2+ bound in the cation binding site. Proc.Natl.Acad.Sci.USA (2013)

Release Date

2013-06-26

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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