6C2F

MBD2 in complex with methylated DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.65 Å
  • R-Value Free: 0.242 
  • R-Value Work: 0.211 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

MBD2 in complex with methylated DNA

Liu, K.Xu, C.Tempel, W.Arrowsmith, C.H.Bountra, C.Edwards, A.M.Min, J.Structural Genomics Consortium

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Methyl-CpG-binding domain protein 2
A, D, G, J, M, P
79Homo sapiensGene Names: MBD2
Find proteins for Q9UBB5 (Homo sapiens)
Go to Gene View: MBD2
Go to UniProtKB:  Q9UBB5
Entity ID: 2
MoleculeChainsLengthOrganism
12-mer DNAB,E,H,K,N,Q12synthetic construct
Entity ID: 3
MoleculeChainsLengthOrganism
12-mer DNAC,F,I,L,O,R12synthetic construct
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
UNX
Query on UNX

Download SDF File 
Download CCD File 
A, D, G, J, M, P
UNKNOWN ATOM OR ION
X
*
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
5CM
Query on 5CM
B, E, H, K, N, Q
DNA LINKINGC10 H16 N3 O7 PDC
Experimental Data & Validation

Experimental Data

Unit Cell:
Length (Å)Angle (°)
a = 40.510α = 90.07
b = 40.600β = 93.11
c = 202.380γ = 119.75
Software Package:
Software NamePurpose
PHENIXrefinement
PHASERphasing
Aimlessdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-02-14
    Type: Initial release