6c1u

X-ray diffraction
2.3Å resolution

MBD2 in complex with a deoxy-oligonucleotide

Released:

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-119646 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Methyl-CpG-binding domain protein 2 Chains: A, B, E, F
Molecule details ›
Chains: A, B, E, F
Length: 79 amino acids
Theoretical weight: 8.79 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9UBB5 (Residues: 143-220; Coverage: 19%)
Gene name: MBD2
Sequence domains: Methyl-CpG binding domain
Structure domains: Methyl-cpg-binding Protein 2; Chain A
12-mer DNA Chains: C, G
Molecule details ›
Chains: C, G
Length: 12 nucleotides
Theoretical weight: 3.76 KDa
Source organism: synthetic construct
Expression system: Not provided
12-mer DNA Chains: D, H
Molecule details ›
Chains: D, H
Length: 12 nucleotides
Theoretical weight: 3.58 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
1 modified residue:

Experiments and Validation Details

Entry percentile scores
X-ray source: CLSI BEAMLINE 08ID-1
Spacegroup: P1
Unit cell:
a: 36.912Å b: 40.015Å c: 105.89Å
α: 84.48° β: 85.91° γ: 62.77°
R-values:
R R work R free
0.233 0.232 0.272
Expression systems:
  • Escherichia coli
  • Not provided