SMTL ID : 2zbd.1

Crystal Structure of the SR Calcium Pump with Bound Aluminium Fluoride, ADP and Calcium

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: N.769, E.772, T.800, D.801, E.909 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.772, A:T.800, A:D.801, H2O.1, H2O.1 CA.2: 8 residues within 4Å: Chain A: V.305, A.306, A.307, I.308, E.310, N.769, N.797, D.801 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:V.305, A:A.306, A:I.308, A:E.310, A:D.801

2 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)

MG.3: 3 residues within 4Å: Ligands: ALF.4, MG.5, ADP.6 No protein-ligand interaction detected (PLIP) MG.5: 5 residues within 4Å: Chain A: D.352, T.354, D.704 Ligands: MG.3, ALF.4 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.352, A:T.354, A:D.704, H2O.1, H2O.2

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.4: 11 residues within 4Å: Chain A: D.352, K.353, T.354, I.625, T.626, G.627, K.685, N.707 Ligands: MG.3, MG.5, ADP.6 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.352

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.6: 21 residues within 4Å: Chain A: D.352, T.354, E.440, E.443, F.488, R.490, K.493, M.495, K.516, G.517, A.518, R.561, C.562, L.563, T.626, G.627, D.628, R.679, N.707 Ligands: MG.3, ALF.4 24 PLIP interactions: 24 interactions with chain A Hydrogen bonds: A:T.354, A:T.354, A:E.440, A:E.443, A:R.561, A:R.561, A:C.562, A:T.626, A:G.627, A:G.627, A:D.628, A:R.679, A:N.707 Water bridges: A:E.440, A:R.490, A:R.490, A:R.490, A:R.679, A:R.679, A:V.680 Salt bridges: A:R.490, A:R.561 pi-Stacking: A:F.488, A:F.488

2 x PC1: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)

PC1.7: 10 residues within 4Å: Chain A: L.97, I.104, V.105, Q.109, R.325, L.803, A.807, F.810, W.933, S.937 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.97, A:I.104, A:L.803, A:A.807, A:F.810, A:W.933 Hydrogen bonds: A:Q.109 Salt bridges: A:R.325 PC1.8: 4 residues within 4Å: Chain A: S.831, G.832, W.833, F.835 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.832

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Toyoshima, C. et al., Lumenal gating mechanism revealed in calcium pump crystal structures with phosphate analogues. Nature (2004)

Release Date

2007-11-20

Peptides

Sarcoplasmic/endoplasmic reticulum calcium ATPase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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Sarcoplasmic/endoplasmic reticulum calcium ATPase 1

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