5T00

Human CTCF ZnF3-7 and methylated DNA complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.19 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.218

Literature

Macromolecules
Sequence Display for 5T00

Classification: TRANSCRIPTION REGULATOR / DNA

Total Structure Weight: 56630.23


Macromolecule Entities
Molecule Chains Length Organism Details
Transcriptional repressor CTCF A, D 150 Homo sapiens Fragment: UNP residues 321-465
Gene Name(s): CTCF Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-TAG(5CM)GCCCCCTGCTGGC-3') B, E 17 Synthetic construct
DNA (5'-GCCAGCAGGGGG(5CM)GCTA-3') C, F 17 Synthetic construct

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ZN
Query on ZN

A, D ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
5CM
Query on 5CM
B, C, E, F DNA LINKING C10 H16 N3 O7 P DC

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.19 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.218
  • Space Group: P 1

Unit Cell:

Length (Å) Angle (°)
a = 40.99 α = 98.33
b = 44.91 β = 92.40
c = 86.80 γ = 94.80

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-08-15
  • Released Date: 2017-05-24
  • Deposition author(s): Hashimoto, H., Wang, D., Cheng, X.

Revision History

  • 2017-05-31
    Type: Database references
  • 2017-06-14
    Type: Database references