SMTL ID : 7aus.1

Yeast Diphosphoinositol Polyphosphate Phosphohydrolase DDP1 in complex with P15

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

1 x RYT: pentadecaphosphate(Non-covalent)

RYT.1: 19 residues within 4Å: Chain A: R.35, S.55, S.56, A.57, H.58, K.60, R.61, I.63, K.66, G.67, G.68, E.83, E.87, R.105, K.108, R.132, R.155, R.174 Ligands: MG.2 44 PLIP interactions: 44 interactions with chain A Hydrogen bonds: A:R.35, A:S.55, A:S.56, A:S.56, A:S.56, A:A.57, A:R.61, A:K.66, A:G.68, A:R.132, A:R.174 Water bridges: A:K.60, A:K.60, A:K.66, A:K.66, A:K.66, A:R.105, A:R.105, A:K.108, A:K.108, A:R.155, A:R.174 Salt bridges: A:R.35, A:R.35, A:H.58, A:H.58, A:H.58, A:H.58, A:K.60, A:K.60, A:R.61, A:R.61, A:K.66, A:K.66, A:K.66, A:R.105, A:R.105, A:K.108, A:K.108, A:K.154, A:R.155, A:R.155, A:K.173, A:R.174

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: K.66, G.67, E.87 Ligands: RYT.1 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:K.66, A:E.87, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Marquez-Monino, M.A. et al., Multiple substrate recognition by yeast diadenosine and diphosphoinositol polyphosphate phosphohydrolase through phosphate clamping. Sci Adv (2021)

Release Date

2021-05-19

Peptides

Diphosphoinositol polyphosphate phosphohydrolase DDP1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Diphosphoinositol polyphosphate phosphohydrolase DDP1

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