SMTL ID : 9deu.1

Crystal structure of epoxyqueuosine reductase QueH in complex with queuosine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x 56B: 2-amino-5-({[(1S,4S,5R)-4,5-dihydroxycyclopent-2-en-1-yl]amino}methyl)-7-(5-O-phosphono-beta-D-ribofuranosyl)-3,7-dihydro-4H-pyrrolo[2,3-d]pyrimidin-4-one(Non-covalent)

56B.1: 6 residues within 4Å: Chain A: R.42, Q.166, N.167, Y.168, C.169 Ligands: CL.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Q.166 Hydrogen bonds: A:R.42, A:Q.166, A:Q.166

1 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.2: 6 residues within 4Å: Chain A: N.32, R.86, C.87, C.90, C.169, C.171 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.87, A:C.90, A:C.169, A:C.171

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 6 residues within 4Å: Chain A: C.9, C.10, D.13, Q.166 Ligands: 56B.1, ZN.4 Ligand excluded by PLIP

1 x ZN: ZINC ION(Non-covalent)

ZN.4: 4 residues within 4Å: Chain A: C.9, C.10, D.13 Ligands: CL.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.9, A:C.10, A:D.13

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hu, Y. et al., Mechanism of Catalysis and Substrate Binding of Epoxyqueuosine Reductase in the Biosynthetic Pathway to Queuosine-Modified tRNA. Biochemistry (2025)

Release Date

2024-12-18

Peptides

Epoxyqueuosine reductase QueH: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Epoxyqueuosine reductase QueH

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