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Crystal structure of the pumilio-homology domain from human PUMILIO1 in complex with ERK2 nre

Analyse Crystal structure of the pumilio-homology domain from human PUMILIO1 in complex… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB
3Q0O
Type
protein + RNA
Length
690 residues
Chains
4
Method
x-ray diffraction
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
Pumilio homolog 1; 5'-R(UP*GP*UP*AP*CP*AP*UP*C)-3'
UniProt
Q14671
Pockets
2 · best druggability 0.60

Structure

x-ray diffraction · 3 distinct chains · 74% helix, 1% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
APumilio homolog 1protein34173% helix, 1% strandQ14671
BPumilio homolog 1protein33575% helix, 0% strandQ14671
C, D5'-R(UP*GP*UP*AP*CP*AP*UP*C)-3'rna7——

Pockets

2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.

PocketVolume (ų)DruggabilityBuriednessLining residuesInside
12430.600.8033empty
22440.470.7424empty

Interfaces

3 interfaces between chains.

  • B–D · 1130 Ų buried · 33 hydrogen bonds · protein-nucleic
  • A–C · 1121 Ų buried · 35 hydrogen bonds · protein-nucleic
  • A–B · 178 Ų buried · 0 hydrogen bonds · protein-protein

Compared structures

  • 3Q0O · Crystal structure of the PUMILIO-homology domain from Human PUMILIO1 in complex with erk2… · the same entry in another collection · chain A against A, TM-score 1.00
  • Q14671 · AlphaFold monomer V2.0 prediction for pumilio homolog 1 (Q14671) · a predicted model of the same protein · chain A against A, TM-score 0.99

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