SMTL ID : 9ij0.1

Cryo-EM Structure of MILI-piRNA-target (8-nt)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

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

G-A-U-G-G-U-A-A.1: 19 residues within 4Å: Chain A: K.506, K.507, F.509, V.587, K.588, T.591, R.707, R.709, S.710, Q.713, Q.896 Chain B: U.2, A.3, C.4, C.5, A.6, U.7, C.8, A.9 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:N.520, A:Y.679, A:V.696, A:N.698, A:K.714, A:Q.718, A:H.746, A:N.931 Salt bridges: A:K.683, A:R.750, A:R.750, A:R.937, A:K.943, A:K.947 pi-Stacking: A:Y.679

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: Q.718, L.971 Chain B: U.1, A.3 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:L.971 MG.3: 3 residues within 4Å: Chain A: D.743, D.813, C.942 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.743, A:D.813

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, Z.Q. et al., Structural insights into RNA cleavage by PIWI Argonaute. Nature (2024)

Release Date

2024-11-13

Peptides

Piwi-like protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Piwi-like protein 2

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