SMTL ID : 5wy6.1

Crystal structure of AtNUDX1 (E56A)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.78 Å

Oligo State

homo-dimer

Ligands

3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.1: 3 residues within 4Å: Chain A: W.121, E.122, N.141 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.122, A:N.141 PEG.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PEG.5: 3 residues within 4Å: Chain B: W.121, L.124, F.136 1 PLIP interactions: 1 interactions with chain B Water bridges: B:F.136

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: F.38, Y.119, P.125, K.126 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.119, A:K.126, A:K.126 Water bridges: A:R.28 GOL.6: 4 residues within 4Å: Chain B: F.38, Y.119, P.125, K.126 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.119, B:K.126, B:K.126

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 4 residues within 4Å: Chain A: K.134 Chain B: E.68, K.69, M.70 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:K.69, B:M.70 Salt bridges: A:K.134

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, J. et al., Structural Insights into the Substrate Recognition Mechanism of Arabidopsis GPP-Bound NUDX1 for Noncanonical Monoterpene Biosynthesis. Mol Plant (2018)

Release Date

2017-11-15

Peptides

Nudix hydrolase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
A

Nudix hydrolase 1