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MolNFT v1 · #107808 · protein + DNA

Crystal structure of the ets domain of human ETV5 in complex with DNA

4UNO · Ets translocation variant 5: “Crystal structure of the ets domain of human ETV5 in complex with DNA”. X-ray diffraction, 1 ligand (CA), 1 pocket (best druggability 0.38). MolNFT v1 #107808 on GenesisL1: 3D structure, binding sites…

PDB
4UNO
Type
protein + DNA
Length
115 residues
Chains
3
Method
x-ray diffraction
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
Ets translocation variant 5; 5'-D(*AP*CP*CP*GP*GP*AP*AP*GP*TP*GP)-3'…
UniProt
P41161
Ligands
CA
Pockets
1 · best druggability 0.38

Structure

x-ray diffraction · 3 distinct chains · 48% helix, 13% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
AEts translocation variant 5protein9548% helix, 13% strandP41161
B5'-D(*AP*CP*CP*GP*GP*AP*AP*GP*TP*GP)-3'dna10——
C5'-D(*AP*CP*TP*TP*CP*CP*GP*GP*TP*CP)-3'dna10——

Ligands and binding sites

  • CA · Calcium 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
1620.380.7913empty

Interfaces

3 interfaces between chains.

  • A–C · 534 Ų buried · 11 hydrogen bonds · protein-nucleic
  • B–C · 401 Ų buried · 30 hydrogen bonds · nucleic-nucleic
  • A–B · 376 Ų buried · 9 hydrogen bonds · protein-nucleic

Compared structures

  • 4UNO · Crystal structure of the ETS domain of human ETV5 in complex with DNA · the same entry in another collection · chain A against A, TM-score 1.00
  • P41161 · AlphaFold monomer V2.0 prediction for ets translocation variant 5 (P41161) · a predicted model of the same protein · chain A against A, TM-score 0.95

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