SMTL ID : 6jxk.2 (1 other biounit)

Rb+-bound E2-MgF state of the gastric proton pump (Wild-type)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 4.30 Å

Oligo State

hetero-1-1-mer

Ligands

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

NAG.1: 5 residues within 4Å: Chain A: N.98, D.101, N.254, Q.288, K.289 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Q.288 Hydrogen bonds: A:K.289 NAG.2: 1 residues within 4Å: Chain A: N.129 No protein-ligand interaction detected (PLIP) NAG.3: 4 residues within 4Å: Chain A: N.160, E.215, K.247, L.249 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:K.247, A:L.249 Hydrogen bonds: A:N.160, A:E.215 NAG.4: 1 residues within 4Å: Chain A: N.220 No protein-ligand interaction detected (PLIP) NAG.5: 1 residues within 4Å: Chain A: N.192 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.192 NAG.6: 2 residues within 4Å: Chain A: N.145, H.238 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.145

1 x CLR: CHOLESTEROL(Non-covalent)

CLR.7: 10 residues within 4Å: Chain A: R.31, W.36, I.39, S.40, Y.43, V.44, Y.47 Chain B: E.810, A.814, F.818 8 PLIP interactions: 6 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:W.36, A:I.39, A:Y.43, A:V.44, A:Y.47, B:A.814, B:F.818 Hydrogen bonds: A:R.31

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

MF4.8: 12 residues within 4Å: Chain B: T.182, G.183, E.184, D.339, K.340, T.341, T.580, G.581, D.582, K.661, N.683 Ligands: MG.9 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.339

1 x MG: MAGNESIUM ION(Non-covalent)

MG.9: 6 residues within 4Å: Chain B: G.183, D.339, T.341, G.342, D.680 Ligands: MF4.8 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.339, B:T.341, B:T.341, B:D.680, B:D.680

3 x K: POTASSIUM ION(Non-functional Binders)(Non-covalent)

K.10: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) K.11: 4 residues within 4Å: Chain B: L.688, K.689, A.691, D.710 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:K.689, B:A.691, B:D.710 K.12: 8 residues within 4Å: Chain B: V.292, A.293, V.295, E.297, N.746, E.749, I.770, E.774 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:V.292, B:A.293, B:V.295, B:E.297, B:E.749

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yamamoto, K. et al., A single K + -binding site in the crystal structure of the gastric proton pump. Elife (2019)

Release Date

2019-08-14

Peptides

Potassium-transporting ATPase subunit beta: A
Potassium-transporting ATPase alpha chain 1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
E

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Potassium-transporting ATPase subunit beta

Potassium-transporting ATPase alpha chain 1

Related Entries With Identical Sequence