SMTL ID : 6aiy.1

Crystal structure of DXO (E234A mutant) in complex with adenosine 3', 5' bisphosphate and two magnesium ions

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x A3P: ADENOSINE-3'-5'-DIPHOSPHATE(Non-covalent)

A3P.1: 13 residues within 4Å: Chain A: L.178, M.179, G.182, Y.183, E.186, D.230, E.247, L.248, K.249, T.250, Q.274 Ligands: MG.2, MG.3 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:L.178, A:G.182, A:E.186, A:E.247, A:E.247, A:T.250, A:T.250, A:Q.274, A:Q.274 Water bridges: A:R.126, A:K.249, A:W.271 Salt bridges: A:K.249, A:K.249

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 6 residues within 4Å: Chain A: E.186, D.230, E.247, L.248 Ligands: A3P.1, MG.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.230, A:E.247, A:L.248, H2O.1 MG.3: 3 residues within 4Å: Chain A: D.230 Ligands: A3P.1, MG.2 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.230, H2O.3, H2O.5, H2O.6, H2O.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yun, J.S. et al., Molecular mechanism for the inhibition of DXO by adenosine 3',5'-bisphosphate. Biochem. Biophys. Res. Commun. (2018)

Release Date

2018-10-17

Peptides

Decapping and exoribonuclease protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Decapping and exoribonuclease protein