SMTL ID : 7efn.1

Crystal structure of the gastric proton pump K791S/E820D/Y340N/E936V in (BYK)E2BeF state

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

hetero-1-1-mer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: S.177, D.337, T.339, D.678 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.678, A:D.678

4 x RB: RUBIDIUM ION(Non-covalent)(Non-functional Binders)

RB.2: 4 residues within 4Å: Chain A: L.686, K.687, A.689, D.708 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:L.686, A:K.687, A:D.708 RB.3: 3 residues within 4Å: Chain A: S.360, Q.370, T.371 No protein-ligand interaction detected (PLIP) RB.5: 6 residues within 4Å: Chain A: A.291, V.293, E.295, N.744, E.747, D.772 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:A.291 RB.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

1 x J3C: (7R,8R,9S)-2,3-dimethyl-9-phenyl-7,8,9,10-tetrahydroimidazo[1,2-h][1,7]naphthyridine-7,8-diol(Non-covalent)

J3C.4: 14 residues within 4Å: Chain A: A.75, D.89, N.90, V.283, M.286, A.287, V.290, A.291, E.747, L.748, Y.751, L.761, L.763, C.765 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:A.75, A:V.283, A:A.287, A:V.290, A:A.291, A:Y.751, A:Y.751, A:Y.751, A:L.761, A:L.763 Hydrogen bonds: A:D.89, A:Y.751

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

NAG.7: 4 residues within 4Å: Chain B: N.70, N.226, Q.260, K.261 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:Q.260 Hydrogen bonds: B:K.261 NAG.8: 1 residues within 4Å: Chain B: N.101 1 PLIP interactions: 1 interactions with chain B Water bridges: B:N.101 NAG.9: 3 residues within 4Å: Chain B: N.132, E.187, L.221 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.221 Hydrogen bonds: B:N.132, B:E.187

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abe, K. et al., Gastric proton pump with two occluded K + engineered with sodium pump-mimetic mutations. Nat Commun (2021)

Release Date

2021-09-01

Peptides

Sodium/potassium-transporting ATPase subunit alpha: A
Potassium-transporting ATPase subunit beta: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

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

Potassium-transporting ATPase subunit beta

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