SMTL ID : 9mx5.1

Cryo-EM structure of ancestral Dicer helicase bound to 27-bp dsRNA in internally-bound transition state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

1 x AF3: ALUMINUM FLUORIDE(Non-covalent)

AF3.1: 6 residues within 4Å: Chain A: T.33, K.37, R.478, R.480 Ligands: ADP.2, MG.3 No protein-ligand interaction detected (PLIP)

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

ADP.2: 12 residues within 4Å: Chain A: R.12, Q.15, T.33, G.34, S.35, G.36, K.37, T.38, D.453, R.480 Ligands: AF3.1, MG.3 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:Q.15, A:G.34, A:G.36, A:K.37, A:T.38, A:T.38, A:T.38, A:D.453, A:D.453 Salt bridges: A:K.37, A:R.480, A:R.480 pi-Cation interactions: A:R.12, A:R.12

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: T.38, Q.76, D.142 Ligands: AF3.1, ADP.2 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Aderounmu, A.M. et al., Biochemical and structural basis of Dicer helicase function unveiled by resurrecting ancient proteins. Proc.Natl.Acad.Sci.USA (2025)

Release Date

2025-03-12

Peptides

AncD1D2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

AncD1D2

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