SMTL ID : 8g9d.1

Diphosphoinositol polyphosphate phosphohydrolase 1 (DIPP1/NUDT3) in complex with 5- phosphonodifluoroacetamide inositol pentakisphosphate (5-PCF2Am-InsP5), an analogue of 5-InsP7

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x KDJ: (1,1-difluoro-2-oxo-2-{[(1s,2R,3S,4s,5R,6S)-2,3,4,5,6-pentakis(phosphonooxy)cyclohexyl]amino}ethyl)phosphonic acid(Non-covalent)

KDJ.1: 14 residues within 4Å: Chain A: R.10, K.18, R.20, S.39, S.40, R.41, H.42, I.47, G.50, G.51, E.70, R.89, R.115, K.133 24 PLIP interactions: 24 interactions with chain A Hydrogen bonds: A:S.39, A:S.39, A:S.39, A:S.40, A:R.41, A:R.41, A:K.133 Water bridges: A:K.18, A:K.18, A:S.40, A:S.40, A:G.50, A:G.50, A:G.52, A:K.133 Salt bridges: A:R.10, A:K.18, A:K.18, A:K.18, A:R.20, A:R.89, A:H.91, A:R.115, A:K.133

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hostachy, S. et al., Fluorination Influences the Bioisostery of Myo-Inositol Pyrophosphate Analogs. Chemistry (2023)

Release Date

2024-01-03

Peptides

Diphosphoinositol polyphosphate phosphohydrolase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Diphosphoinositol polyphosphate phosphohydrolase 1

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