2LI8

The solution structure of the Lin28-ZnF domains bound to AGGAGAU of pre-let-7 miRNA


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 20 
  • Selection Criteria: lowest energy/fewest violation 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural basis of pre-let-7 miRNA recognition by the zinc knuckles of pluripotency factor Lin28.

Loughlin, F.E.Gebert, L.F.Towbin, H.Brunschweiger, A.Hall, J.Allain, F.H.

(2011) Nat.Struct.Mol.Biol. 19: 84-89

  • DOI: 10.1038/nsmb.2202

  • PubMed Abstract: 
  • Lin28 inhibits the biogenesis of let-7 miRNAs through a direct interaction with the terminal loop of pre-let-7. This interaction requires the zinc-knuckle domains of Lin28. We show that the zinc knuckle domains of Lin28 are sufficient to provide bind ...

    Lin28 inhibits the biogenesis of let-7 miRNAs through a direct interaction with the terminal loop of pre-let-7. This interaction requires the zinc-knuckle domains of Lin28. We show that the zinc knuckle domains of Lin28 are sufficient to provide binding selectivity for pre-let-7 miRNAs and present the NMR structure of human Lin28 zinc knuckles bound to the short sequence 5'-AGGAGAU-3'. The structure reveals that each zinc knuckle recognizes an AG dinucleotide separated by a single nucleotide spacer. This defines a new 5'-NGNNG-3' consensus motif that explains how Lin28 selectively recognizes pre-let-7 family members. Binding assays in cell lysates and functional assays in cultured cells demonstrate that the interactions observed in the solution structure also occur between the full-length protein and members of the pre-let-7 family. The consensus sequence explains several seemingly disparate previously published observations on the binding properties of Lin28.


    Organizational Affiliation

    Institute of Molecular Biology and Biophysics, ETH Zürich, Zürich, Switzerland.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Protein lin-28 homolog A
A
74Homo sapiensMutation(s): 0 
Gene Names: LIN28A (CSDD1, LIN28, ZCCHC1)
Find proteins for Q9H9Z2 (Homo sapiens)
Go to Gene View: LIN28A
Go to UniProtKB:  Q9H9Z2
Entity ID: 2
MoleculeChainsLengthOrganism
RNA (5'-R(*AP*GP*GP*AP*GP*AP*U)-3')B7N/A
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 20 
  • Selection Criteria: lowest energy/fewest violation 
  • Olderado: 2LI8 Olderado

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-12-07
    Type: Initial release
  • Version 1.1: 2012-01-25
    Type: Database references