› 8coo

Solution NMR

Solution structure of Zipcode binding protein 1 (ZBP1) KH3(DD)KH4 domains in complex with N6-Methyladenosine containing RNA

Released:
DOI: 10.2210/pdb8coo/pdb
PDB entry 8coo coloured by chain, ensemble of 20 models, front view.
PDB entry 8coo coloured by chain, ensemble of 20 models, side view.
PDB entry 8coo coloured by chain, ensemble of 20 models, top view.
Source organisms:
Primary publication:
Direct m6A recognition by IMP1 underlays an alternative model of target selection for non-canonical methyl-readers.
Nicastro G, Abis G, Klein P, Esteban-Serna S, Gallagher C, Chaves-Arquero B, Cai Y, Figueiredo AM, Martin SR, Patani R, Taylor IA, Ramos A
OpenAccess logo Nucleic Acids Res 51 8774-8786 (2023)
PMID: 37377445

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-271684 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Insulin-like growth factor 2 mRNA-binding protein 1 Chain: A
Molecule details ›
Chain: A
Length: 191 amino acids
Theoretical weight: 20.61 KDa
Source organism: Gallus gallus
Expression system: Escherichia coli
UniProt:
  • Canonical: O42254 (Residues: 387-573; Coverage: 33%)
Gene names: IGF2BP1, VICKZ1, ZBP1
Sequence domains: KH domain
RNA_(5'-R(*(UP*CP*GP*GP*(6MZ)P*CP*U)-3') Chain: B
Molecule details ›
Chain: B
Length: 7 nucleotides
Theoretical weight: 2.21 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
1 modified residue:
Ligand 6MZ 1 x 6MZ

Experiments and Validation Details

Entry percentile scores
Chemical shift assignment: 62%
Refinement method: torsion angle dynamics
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

1 review citation

Interconnections between m6A RNA modification, RNA structure, and protein-RNA complex assembly.
Höfler et al. (2024)