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MolNFT v1 · #43613 · protein + RNA

The solution structure of the LIN28-znf domains bound to aggagau of pre-let-7 miRNA

2LI8 · Protein lin-28 homolog a: “The solution structure of the LIN28-znf domains bound to aggagau of pre-let-7 miRNA”. Solution nmr, 1 ligand (ZN), 1 pocket (best druggability 0.44). MolNFT v1 #43613 on GenesisL1: 3D structure, binding…

PDB
2LI8
Type
protein + RNA
Length
70 residues
Chains
2
Method
solution nmr
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
Protein lin-28 homolog a; RNA (5'-R(*AP*GP*GP*AP*GP*AP*U)-3')
UniProt
Q9H9Z2
Ligands
ZN
Pockets
1 · best druggability 0.44

Structure

solution nmr · 2 distinct chains · 10% helix, 0% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
AProtein lin-28 homolog aprotein6310% helix, 0% strandQ9H9Z2
BRNA (5'-R(*AP*GP*GP*AP*GP*AP*U)-3')rna7——

Ligands and binding sites

  • ZN · Zinc ion · metal · 2 copies · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.

PocketVolume (ų)DruggabilityBuriednessLining residuesInside
11310.440.7720empty

Interfaces

1 interface between chains.

  • A–B · 1037 Ų buried · 30 hydrogen bonds · protein-nucleic

Compared structures

  • 2LI8 · The solution structure of the Lin28-ZnF domains bound to AGGAGAU of pre-let-7 miRNA · the same entry in another collection · chain A against A, TM-score 1.00
  • Q9H9Z2 · AlphaFold monomer V2.0 prediction for protein lin-28 homolog a (Q9H9Z2) · a predicted model of the same protein · chain A against A, TM-score 0.62

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