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Estrogen related receptor 2 DNA binding domain in complex with DNA

Analyse Estrogen related receptor 2 DNA binding domain in complex with DNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB
1LO1
Type
protein + DNA
Length
116 residues
Chains
3
Method
solution nmr
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
5'-D(*GP*CP*TP*CP*AP*AP*GP*GP*TP*CP*AP*CP*G)-3'…
UniProt
O95718
Ligands
ZN
Pockets
1 · best druggability 0.25

Structure

solution nmr · 3 distinct chains · 36% helix, 9% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
B5'-D(*GP*CP*TP*CP*AP*AP*GP*GP*TP*CP*AP*CP*G)-3'dna13——
C5'-D(*CP*GP*TP*GP*AP*CP*CP*TP*TP*GP*AP*GP*C)-3'dna13——
ASteroid hormone receptor ERR2protein9036% helix, 9% strandO95718

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
1550.250.7312empty

Interfaces

3 interfaces between chains.

  • B–A · 702 Ų buried · 29 hydrogen bonds · protein-nucleic
  • C–A · 677 Ų buried · 17 hydrogen bonds · protein-nucleic
  • B–C · 596 Ų buried · 48 hydrogen bonds · nucleic-nucleic

Compared structures

  • 1LO1 · Estrogen related receptor 2 DNA binding domain in complex with DNA · the same entry in another collection · chain B against B, TM-score 1.00
  • O95718 · AlphaFold monomer V2.0 prediction for steroid hormone receptor ERR2 (O95718) · a predicted model of the same protein · chain A against A, TM-score 0.84

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