3C2I

The Crystal Structure of Methyl-CpG Binding Domain of Human MeCP2 in Complex with a Methylated DNA Sequence from BDNF


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.276
  • R-Value Work: 0.212

Literature

Macromolecules
Sequence Display for 3C2I

Classification: Transcription regulator

Total Structure Weight: 23575.42


Macromolecule Entities
Molecule Chains Length Organism Details
Methyl-CpG-binding protein 2 A 97 Homo sapiens Fragment: UNP residues 77-167, Human MeCP2 MBD domain
Mutation: A140M
Gene Name(s): MECP2 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*DTP*DCP*DTP*DGP*DGP*DAP*DAP*(5CM)P*DGP*DGP*DAP*DAP*DTP*DTP*DCP*DTP*DTP*DCP*DTP*DA)-3') B 20 synthetic
DNA (5'-D(*DAP*DTP*DAP*DGP*DAP*DAP*DGP*DAP*DAP*DTP*DTP*DCP*(5CM)P*DGP*DTP*DTP*DCP*DCP*DAP*DG)-3') C 20 synthetic

Small Molecules
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A L-PEPTIDE LINKING C5 H11 N O2 Se MET
5CM
Query on 5CM
B, C DNA LINKING C10 H16 N3 O7 P DC

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.276
  • R-Value Work: 0.212
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 79.71 α = 90.00
b = 53.60 β = 132.10
c = 65.73 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-01-25
  • Released Date: 2008-05-13
  • Deposition author(s): Ho, K.L., McNae, I.W., Schmiedeberg, L., Klose, R.J., Bird, A.P., Walkinshaw, M.D.

Revision History

  • 2011-07-13
    Type: Version format compliance
  • 2017-01-11
    Type: Other