› 5wjq

X-ray diffraction
2.79Å resolution

mouseZFP568-ZnF2-11 in complex with DNA

Released:
DOI: 10.2210/pdb5wjq/pdb
PDB entry 5wjq coloured by chain, front view.
PDB entry 5wjq coloured by chain, side view.
PDB entry 5wjq coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
DNA Conformation Induces Adaptable Binding by Tandem Zinc Finger Proteins.
Patel A, Yang P, Tinkham M, Pradhan M, Sun MA, Wang Y, Hoang D, Wolf G, Horton JR, Zhang X, Macfarlan T, Cheng X
Cell 173 221-233.e12 (2018)
PMID: 29551271

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-119343 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Zinc finger protein 568 Chain: D
Molecule details ›
Chain: D
Length: 288 amino acids
Theoretical weight: 33.11 KDa
Source organism: Mus musculus
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: E9PYI1 (Residues: 388-668; Coverage: 42%)
Gene names: Zfp568, Znf568, chato
Sequence domains: Zinc finger, C2H2 type
DNA (28-MER) Chain: A
Molecule details ›
Chain: A
Length: 28 nucleotides
Theoretical weight: 8.78 KDa
Source organism: Mus musculus
Expression system: Not provided
DNA (28-MER) Chain: B
Molecule details ›
Chain: B
Length: 28 nucleotides
Theoretical weight: 8.43 KDa
Source organism: Mus musculus
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand TRS 5 x TRS
Ligand ZN 10 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P21212
Unit cell:
a: 180.641Å b: 35.239Å c: 81.912Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.196 0.193 0.263
Expression systems:
  • Escherichia coli 'BL21-Gold(DE3)pLysS AG'
  • Not provided

Quick links

Citations

1 review citation

Transposable elements shape the evolution of mammalian development.
Senft et al. (2021)
19 other articles

4 mentions without citation

AlphaFill: enriching AlphaFold models with ligands and cofactors.
Hekkelman et al. (2023)
3 more