5XFQ

Ternary complex of PHF1, a DNA duplex and a histone peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.222

Literature

Macromolecules
Sequence Display for 5XFQ

Classification: TRANSCRIPTION / DNA

Total Structure Weight: 86572.43


Macromolecule Entities
Molecule Chains Length Organism Details
PHD finger protein 1 A, B 336 Mus musculus Fragment: UNP residues 25-360
Gene Name(s): Phf1 Plc1 Tctex-3 Tctex3
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Peptide from Histone H3 E, F 13 Homo sapiens Gene Name(s): HIST2H3PS2 RP5-998N21.6-001
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*GP*GP*GP*CP*GP*GP*CP*CP*GP*CP*CP*CP*T)-3') C, D 13 Synthetic construct

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

A, B 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
M3L
Query on M3L
E, F L-PEPTIDE LINKING C9 H21 N2 O2 LYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.222
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 141.24 α = 90.00
b = 62.55 β = 103.04
c = 97.34 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2017-04-11
  • Released Date: 2017-09-13
  • Deposition author(s): Wang, Z., Li, H.

Revision History

No revisions since initial release