SMTL ID : 5gpj.2 (1 other biounit)

Crystal Structure of Proton-Pumping Pyrophosphatase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.50 Å

Oligo State

homo-dimer

Ligands

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 10 residues within 4Å: Chain A: K.250, D.253, D.279, D.283, D.507, N.534, D.691, D.727, K.730 Ligands: MG.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.253, A:N.534 Salt bridges: A:K.250, A:K.730 PO4.4: 11 residues within 4Å: Chain B: K.250, D.253, D.279, D.283, D.507, N.534, D.691, D.727, K.730 Ligands: MG.5, MG.6 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.534 Salt bridges: B:K.250, B:K.730

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: D.279, N.280, D.507 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.507 MG.3: 5 residues within 4Å: Chain A: D.253, D.691, D.723, D.727 Ligands: PO4.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.253 MG.5: 5 residues within 4Å: Chain B: D.253, D.279, D.283, D.507 Ligands: PO4.4 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.283, B:D.507 MG.6: 5 residues within 4Å: Chain B: K.250, D.253, D.727, K.730 Ligands: PO4.4 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.253, B:D.727

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, K.M. et al., Membrane pyrophosphatases from Thermotoga maritima and Vigna radiata suggest a conserved coupling mechanism. Nat Commun (2016)

Release Date

2016-12-28

Peptides

Pyrophosphate-energized vacuolar membrane proton pump: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Membrane

We predict this structure to be a membrane protein.
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Pyrophosphate-energized vacuolar membrane proton pump

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