SMTL ID : 4w5q.1

The Crystal Structure of Human Argonaute2 Bound to a Guide and Target RNA Containing Seed Pairing from 2-8

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

monomer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.1: 4 residues within 4Å: Chain A: D.597, V.598, D.669 Chain B: C.10 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.597, A:V.598 MG.6: 3 residues within 4Å: Chain B: C.12, A.13, A.14 No protein-ligand interaction detected (PLIP) MG.7: 2 residues within 4Å: Chain C: U.4, G.5 No protein-ligand interaction detected (PLIP)

4 x IPH: PHENOL(Non-covalent)

IPH.2: 7 residues within 4Å: Chain A: R.688, C.691, I.692, Q.699, P.700, I.702, D.771 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:R.688, A:R.688, A:I.692, A:Q.699, A:I.702 Hydrogen bonds: A:P.700 IPH.3: 6 residues within 4Å: Chain A: L.650, Y.654, K.660, P.661, L.694, Y.698 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.654, A:K.660, A:K.660, A:K.660, A:L.694 pi-Stacking: A:Y.698 IPH.4: 7 residues within 4Å: Chain A: F.587, Q.589, P.590, V.591, D.619, A.620, F.653 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.591, A:A.620, A:F.653 Hydrogen bonds: A:F.587 IPH.5: 9 residues within 4Å: Chain A: G.536, D.537, G.541, M.542, A.543, K.570, T.852, T.855, Y.857 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.543, A:T.852, A:T.855, A:Y.857 Hydrogen bonds: A:K.570

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schirle, N.T. et al., Gene regulation. Structural basis for microRNA targeting. Science (2014)

Release Date

2014-11-12

Peptides

Protein argonaute-2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Protein argonaute-2

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