SMTL ID : 2qb7.1 (1 other biounit)

Saccharomyces cerevisiae cytosolic exopolyphosphatase, phosphate complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

2 x CO: COBALT (II) ION(Non-covalent)

CO.1: 5 residues within 4Å: Chain A: D.41, D.127, H.148, H.149 Ligands: PO4.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.41, A:D.127, A:H.148, H2O.18 CO.2: 3 residues within 4Å: Chain A: D.39 Ligands: PO4.3, PO4.5 No protein-ligand interaction detected (PLIP)

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

PO4.3: 11 residues within 4Å: Chain A: N.35, S.37, D.39, D.41, D.127, H.148, H.149, K.268 Ligands: CO.1, CO.2, PO4.5 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.35, A:S.37 Water bridges: A:D.39, A:R.381, A:R.381 Salt bridges: A:H.149, A:K.268 PO4.4: 5 residues within 4Å: Chain A: S.286, R.334, T.380, R.381 Ligands: PO4.5 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.286, A:R.334, A:R.381 Water bridges: A:T.380 Salt bridges: A:R.381 PO4.5: 9 residues within 4Å: Chain A: H.149, K.268, T.380, R.381, K.382 Ligands: CO.2, PO4.3, PO4.4, ACT.6 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:H.149, A:R.381, A:K.382 Water bridges: A:R.381 Salt bridges: A:K.268, A:R.381

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.6: 6 residues within 4Å: Chain A: K.268, F.270, R.381, K.382, V.385 Ligands: PO4.5 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.270, A:V.385 Water bridges: A:K.268, A:K.268 Salt bridges: A:K.268 ACT.7: 4 residues within 4Å: Chain A: R.208, Y.244, K.248, R.327 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.244 Hydrogen bonds: A:S.204 Water bridges: A:R.208, A:K.248, A:K.248 Salt bridges: A:R.208, A:K.248, A:R.327

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.8: 3 residues within 4Å: Chain A: M.206, I.218, L.237 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.222

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ugochukwu, E. et al., The crystal structure of the cytosolic exopolyphosphatase from Saccharomyces cerevisiae reveals the basis for substrate specificity. J.Mol.Biol. (2007)

Release Date

2007-12-11

Peptides

Exopolyphosphatase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Exopolyphosphatase

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