SMTL ID : 9dts.3 (3 other biounits)

Crystal structure of the human eIF4A1/AMPPNP/amidino-rocaglate/polypurine RNA complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.69 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 6 residues within 4Å: Chain A: K.64, T.65, D.164, E.165, G.317 Ligands: ANP.2 No protein-ligand interaction detected (PLIP)

1 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.2: 25 residues within 4Å: Chain A: F.16, Y.32, F.34, E.35, K.36, P.37, S.38, Q.41, Q.59, S.60, G.61, T.62, G.63, K.64, T.65, A.66, E.165, A.196, G.317, D.319, Q.321, R.344, R.347, F.348 Ligands: MG.1 33 PLIP interactions: 33 interactions with chain A Hydrogen bonds: A:S.38, A:Q.41, A:Q.41, A:G.61, A:T.62, A:T.62, A:G.63, A:K.64, A:K.64, A:T.65, A:T.65, A:T.65, A:G.317, A:R.344, A:R.344, A:R.347, A:R.347 Water bridges: A:E.35, A:E.35, A:A.66, A:Q.97, A:Q.97, A:Q.97, A:E.165, A:E.165, A:E.165, A:E.165, A:A.196, A:H.340 Salt bridges: A:R.347 pi-Stacking: A:F.34, A:F.34, A:F.348

1 x 01: (3aR,4R,5S,5aR,10bR)-3a-hydroxy-N,8,10-trimethoxy-5a-(4-methoxyphenyl)-N,2-dimethyl-5-phenyl-3a,4,5,5a-tetrahydro-1H-[1]benzofuro[3',2':1,5]cyclopenta[1,2-d]imidazole-4-carboxamide

01.3: 13 residues within 4Å: Chain A: R.92, P.141, G.142, F.145, D.146, N.149, D.176, Q.177, D.180, I.181 Chain B: A.5, G.6, A.7 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.145, A:F.145, A:Q.177, A:Q.177 Hydrogen bonds: A:N.149, A:Q.177

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Conley, J.F. et al., Structural Basis for the Improved RNA Clamping of Amidino-Rocaglates to eIF4A1. Acs Omega (2025)

Release Date

2025-03-12

Peptides

Eukaryotic initiation factor 4A-I: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Eukaryotic initiation factor 4A-I

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