SMTL ID : 9k6p.1

Cryo-EM Structure of hAGO2D669A-siRNA-target (12-nt)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

1 x G- G- C- U- C- U- U- G- U: RNA (5'-R(P*GP*GP*CP*UP*CP*UP*UP*GP*U)-3')(Non-covalent)

G-G-C-U-C-U-U-G-U.1: 24 residues within 4Å: Chain A: D.358, S.362, I.365, V.434, D.436, K.525, Q.558, V.598, T.599, R.635, R.710, K.726, I.756, Q.757, R.814 Chain B: A.2, C.3, A.4, A.5, G.6, A.7, G.8, C.9, C.10 27 PLIP interactions: 27 interactions with chain A Hydrophobic interactions: A:F.811 Hydrogen bonds: A:S.220, A:A.223, A:K.354, A:T.368, A:G.524, A:Y.529, A:Y.529, A:C.546, A:Q.548, A:Q.548, A:R.554, A:N.562, A:Q.757, A:S.760, A:R.761, A:R.792, A:R.792, A:S.798, A:S.798 Salt bridges: A:R.196, A:R.375, A:K.533, A:K.709, A:K.709, A:R.714 pi-Stacking: A:Y.529

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, Z. et al., Mechanistic insights into RNA cleavage by human Argonaute2-siRNA complex. Cell Res. (2025)

Release Date

2025-06-25

Peptides

Protein argonaute-2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Protein argonaute-2

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