SMTL ID : 6xki.1

Crystal structure of eIF4A-I in complex with RNA bound to des-MePateA, a pateamine A analog

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.87 Å

Oligo State

monomer

Ligands

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

ANP.1: 26 residues within 4Å: Chain A: F.17, Y.33, F.35, E.36, K.37, P.38, S.39, Q.42, Q.60, S.61, G.62, T.63, G.64, K.65, T.66, A.67, E.166, A.197, G.318, D.320, Q.322, R.345, R.348, F.349, R.351 Ligands: MG.2 27 PLIP interactions: 27 interactions with chain A Hydrogen bonds: A:K.37, A:S.39, A:Q.42, A:S.61, A:G.62, A:T.63, A:T.63, A:G.64, A:K.65, A:K.65, A:T.66, A:T.66, A:T.66, A:A.67, A:E.166, A:G.318, A:Q.322, A:R.345, A:R.345, A:R.348 Water bridges: A:E.166, A:A.197, A:G.318, A:H.341 Salt bridges: A:R.348 pi-Stacking: A:F.35, A:F.349

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: K.65, T.66, D.165, G.318 Ligands: ANP.1 No protein-ligand interaction detected (PLIP)

1 x V6D: (3S,6Z,8E,11S,15R)-15-amino-3-[(1E,3E,5E)-7-(dimethylamino)-2,5-dimethylhepta-1,3,5-trien-1-yl]-9,11-dimethyl-4,12-dioxa-20-thia-21-azabicyclo[16.2.1]henicosa-1(21),6,8,18-tetraene-5,13-dione(Non-covalent)

V6D.3: 14 residues within 4Å: Chain A: R.93, P.142, G.143, F.146, D.147, N.150, D.177, Q.178, D.181, R.265, G.287, D.288 Chain B: A.7, G.8 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.146, A:F.146, A:N.150 Hydrogen bonds: A:D.181 Water bridges: A:R.265

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Naineni, S.K. et al., Functional mimicry revealed by the crystal structure of an eIF4A:RNA complex bound to the interfacial inhibitor, desmethyl pateamine A. Cell Chem Biol (2021)

Release Date

2021-01-06

Peptides

Eukaryotic initiation factor 4A-I: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Eukaryotic initiation factor 4A-I