7BL8

BAZ2A bromodomain in complex with the chemical probe BAZ2-ICR

• PDB DOI: https://doi.org/10.2210/pdb7BL8/pdb

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


• Deposited: 2021-01-18 Released: 2022-03-02 
• Deposition Author(s): Dalle Vedove, A., Cazzanelli, G., Caflisch, A., Lolli, G.
• Funding Organization(s): Italian Association for Cancer Research, Swiss National Science Foundation

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.239 
• R-Value Work: 0.203 
• R-Value Observed: 0.205 

Literature

Chemical probes in the BAZ2A bromodomain

Cazzanelli, G., Dalle Vedove, A., D'Agostino, V.G., Caflisch, A., Lolli, G.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 12.74 kDa 
• Atom Count: 937 
• Modelled Residue Count: 104 
• Deposited Residue Count: 105 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bromodomain adjacent to zinc finger domain protein 2A	A	105	Homo sapiens	Mutation(s): 0  Gene Names: BAZ2A, KIAA0314, TIP5
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UIF9 (Homo sapiens) Explore Q9UIF9  Go to UniProtKB:  Q9UIF9
PHAROS:  Q9UIF9 GTEx:  ENSG00000076108

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
U1Z (Subject of Investigation/LOI)	B [auth A]	4-[5-(1-methylpyrazol-4-yl)-3-[2-(1-methylpyrazol-4-yl)ethyl]imidazol-4-yl]benzenecarbonitrile C20 H19 N7 RRZVGDGTWNQAPW-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.239 
• R-Value Work: 0.203 
• R-Value Observed: 0.205 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.316	α = 90
b = 95.316	β = 90
c = 32.881	γ = 120

Software Package:

Software Name	Purpose
XDS	data scaling
Aimless	data reduction
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-03-02 
Deposition Author(s): Dalle Vedove, A., Cazzanelli, G., Caflisch, A., Lolli, G.

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Funding Organization	Location	Grant Number
Italian Association for Cancer Research	Italy	MFAG 2017 - ID. 19882
Swiss National Science Foundation	Switzerland	SNSF grant 310030B-189363

Revision History  

• Version 1.0: 2022-03-02
  Type: Initial release
  
• Version 1.1: 2024-01-31
  Changes: Data collection, Refinement description