7JKX

Bromodomain-containing protein 4 (BRD4) bromodomain 1 (BD1) complexed with YF3-6

• PDB DOI: https://doi.org/10.2210/pdb7JKX/pdb

• Classification: TRANSCRIPTION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2020-07-29 Released: 2021-06-23 
• Deposition Author(s): Ratia, K.M., Xiong, R., Li, Y., Shen, Z., Zhao, J., Huang, F., Dubrovyskyii, O., Thatcher, G.R.
• Funding Organization(s): National Institutes of Health/National Center for Research Resources (NIH/NCRR)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.20 Å
• R-Value Free: 0.209 
• R-Value Work: 0.183 
• R-Value Observed: 0.184 

Literature

Bromodomain-containing protein 4 (BRD4) bromodomain 1 (BD1) complexed with YF3-6

Xiong, R., Ratia, K.M., Li, Y., Shen, Z., Zhao, J., Huang, F., Dubrovyskyii, O., Thatcher, G.R.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: homology

Macromolecule Content

• Total Structure Weight: 15.67 kDa 
• Atom Count: 1,339 
• Modelled Residue Count: 127 
• Deposited Residue Count: 127 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bromodomain-containing protein 4	A	127	Homo sapiens	Mutation(s): 0  Gene Names: BRD4, HUNK1
UniProt & NIH Common Fund Data Resources
Find proteins for O60885 (Homo sapiens) Explore O60885  Go to UniProtKB:  O60885
PHAROS:  O60885 GTEx:  ENSG00000141867

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
Y36 (Subject of Investigation/LOI)	B [auth A]	N-{1-[1,1-di(pyridin-2-yl)ethyl]-6-[1-methyl-5-(methylamino)-6-oxo-1,6-dihydropyridin-3-yl]-1H-indol-4-yl}ethanesulfonamide C29 H30 N6 O3 S LWAOKJXRYBDGOH-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.20 Å
• R-Value Free: 0.209 
• R-Value Work: 0.183 
• R-Value Observed: 0.184 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.049	α = 90
b = 44.227	β = 90
c = 79.121	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2021-06-23 
Deposition Author(s): Ratia, K.M., Xiong, R., Li, Y., Shen, Z., Zhao, J., Huang, F., Dubrovyskyii, O., Thatcher, G.R.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Center for Research Resources (NIH/NCRR)	United States	UL1RR029879

Revision History  

• Version 1.0: 2021-06-23
  Type: Initial release
  
• Version 1.1: 2021-09-08
  Changes: Database references, Other, Structure summary
• Version 1.2: 2023-10-18
  Changes: Data collection, Refinement description