SMTL ID : 4emf.1

Crystal structure of the complex of type I Ribosome inactivating protein in complex with 7n-methyl-8-hydroguanosine-5-p-diphosphate at 1.77 A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.77 Å

Oligo State

monomer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: L.6, G.8, A.9, P.130, A.175, Y.176 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.8, A:A.9 GOL.2: 5 residues within 4Å: Chain A: N.33, T.234, S.235, I.237, Q.238 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.33, A:T.234, A:Q.238

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 4 residues within 4Å: Chain A: T.226, N.227, T.229, S.230 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.226, A:N.227 Water bridges: A:S.230, A:N.231

1 x M7G: 7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE(Non-covalent)

M7G.4: 13 residues within 4Å: Chain A: Y.70, I.71, M.72, F.83, E.85, G.109, N.110, Y.111, I.155, E.160, R.163, E.189, N.190 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:I.71, A:N.110, A:Y.111, A:Y.111, A:R.163, A:R.163, A:N.190 Water bridges: A:I.71, A:I.71, A:E.112, A:E.160, A:E.160, A:W.192 Salt bridges: A:E.85 pi-Stacking: A:Y.70, A:Y.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kushwaha, G.S. et al., First structural evidence of sequestration of mRNA cap structures by type 1 ribosome inactivating protein from Momordica balsamina. Proteins (2013)

Release Date

2012-05-02

Peptides

rRNA N-glycosidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

rRNA N-glycosidase

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