SMTL ID : 7bgy.1

Cryo-EM Structure of KdpFABC in E2Pi state with MgF4

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x PEV: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE(Non-covalent)

PEV.1: 13 residues within 4Å: Chain A: L.74, F.78, W.99, L.103, V.107, L.434, P.479, F.480, C.483, L.484, A.486, F.487, F.490 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.434, A:P.479, A:F.480, A:L.484, A:F.487, A:F.487, A:F.490

1 x 9Y0: (2R)-3-(((2-aminoethoxy)(hydroxy)phosphoryl)oxy)-2-(palmitoyloxy)propyl (E)-octadec-9-enoate(Non-covalent)

9Y0.2: 31 residues within 4Å: Chain A: L.389, I.393, M.397, P.521, H.523, G.524, P.525, L.526, F.527, G.529, L.530, G.533, T.534, L.537, V.538, L.541 Chain B: L.224, L.228, I.580, A.581, V.584, A.585, F.588, S.647, R.651, L.654, W.655, G.658, L.659, L.662, F.666 11 PLIP interactions: 7 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:L.228, B:F.588, B:L.654, B:W.655, B:L.662, B:F.666, A:I.393, A:L.526, A:V.538 Salt bridges: B:R.651 Hydrogen bonds: A:L.526

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain B: D.307, T.309, D.518, G.519 Ligands: MF4.4 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.307, B:T.309, B:D.518

1 x MF4: TETRAFLUOROMAGNESATE(2-)(Non-covalent)

MF4.4: 12 residues within 4Å: Chain B: T.159, G.160, E.161, D.307, K.308, T.309, T.471, G.472, D.473, K.499, N.521 Ligands: MG.3 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.307

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sweet, M.E. et al., Structural basis for potassium transport in prokaryotes by KdpFABC. Proc.Natl.Acad.Sci.USA (2021)

Release Date

2021-01-27

Peptides

Potassium-transporting ATPase potassium-binding subunit: A
Potassium-transporting ATPase ATP-binding subunit: B
Potassium-transporting ATPase KdpC subunit: C
Potassium-transporting ATPase KdpF subunit: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Membrane

We predict this structure to be a membrane protein.
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Potassium-transporting ATPase potassium-binding subunit

Potassium-transporting ATPase ATP-binding subunit

Potassium-transporting ATPase KdpC subunit

Potassium-transporting ATPase KdpF subunit

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