SMTL ID : 4w5r.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

2 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.1: 5 residues within 4Å: Chain A: A.184, E.197, W.199, A.227, A.348 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.199, A:A.348 IPA.2: 5 residues within 4Å: Chain A: P.580, Q.581, R.583, P.584, Q.588 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Q.588 Hydrogen bonds: A:Q.581

3 x IPH: PHENOL(Non-covalent)

IPH.3: 5 residues within 4Å: Chain A: L.650, Y.654, K.660, E.695, Y.698 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.654, A:K.660, A:K.660 pi-Stacking: A:Y.698 IPH.4: 7 residues within 4Å: Chain A: F.587, Q.589, P.590, V.591, A.620, F.653, F.659 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.591, A:A.620, A:F.653, A:F.659 Hydrogen bonds: A:F.587 IPH.5: 9 residues within 4Å: Chain A: D.537, G.541, M.542, A.543, K.570, D.851, 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

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

MG.6: 3 residues within 4Å: Chain A: D.597, V.598, T.599 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:V.598, H2O.1, H2O.1, H2O.1, H2O.1 MG.7: 1 residues within 4Å: Chain C: U.6 No protein-ligand interaction detected (PLIP)

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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