4ALG | pdb_00004alg

N-Terminal Bromodomain of Human BRD2 With IBET-151

• PDB DOI: https://doi.org/10.2210/pdb4ALG/pdb

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


• Deposited: 2012-03-03 Released: 2012-07-04 
• Deposition Author(s): Chung, C., Lamotte, Y., Donche, F., Bouillot, A., Mirguet, O.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.202 (Depositor), 0.210 (DCC) 
• R-Value Work: 
  0.176 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.177 (Depositor) 

Literature

Identification of a Novel Series of Bet Family Bromodomain Inhibitors: Binding Mode and Profile of I-Bet151 (Gsk1210151A).

Seal, J., Lamotte, Y., Donche, F., Bouillot, A., Mirguet, O., Gellibert, F., Nicodeme, E., Krysa, G., Kirilovsky, J., Beinke, S., Mccleary, S., Rioja, I., Bamborough, P., Chung, C., Gordon, L., Lewis, T., Walker, A.L., Cutler, L., Lugo, D., Wilson, D.M., Witherington, J., Lee, K., Prinjha, R.K.

(2012) Bioorg Med Chem Lett 22: 2968

• PubMed: 22437115 
• DOI: https://doi.org/10.1016/j.bmcl.2012.02.041
• Primary Citation of Related Structures:  
  4AKN, 4ALG


• PubMed Abstract: 
  

  A novel series of quinoline isoxazole BET family bromodomain inhibitors are discussed. Crystallography is used to illustrate binding modes and rationalize their SAR. One member, I-BET151 (GSK1210151A), shows good oral bioavailability in both the rat and minipig as well as demonstrating efficient suppression of bacterial induced inflammation and sepsis in a murine in vivo endotoxaemia model.

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Organizational Affiliation: 

Epinova DPU, GlaxoSmithKline R&D, Medicines Research Centre, Stevenage, Hertfordshire, UK. [e-mail]

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 18.48 kDa 
• Atom Count: 1,166 
• Modelled Residue Count: 118 
• Deposited Residue Count: 154 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BROMODOMAIN-CONTAINING PROTEIN 2	A	154	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P25440 (Homo sapiens) Explore P25440  Go to UniProtKB:  P25440
PHAROS:  P25440 GTEx:  ENSG00000204256

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
1GH	D [auth A]	7-(3,5-DIMETHYL-1,2-OXAZOL-4-YL)-8-METHOXY-1-[(1R)-1-(PYRIDIN-2-YL)ETHYL]-1H,2H,3H-IMIDAZO[4,5-C]QUINOLIN-2-ONE C23 H21 N5 O3 VUVUVNZRUGEAHB-CYBMUJFWSA-N
GOL	C [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
ACT	B [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Binding Affinity Annotations
ID	Source	Binding Affinity
1GH	BindingDB:  4ALG	Ki: min: 9, max: 50 (nM) from 2 assay(s)
		Kd: min: 55, max: 70 (nM) from 2 assay(s)
		IC50: min: 50, max: 501.19 (nM) from 4 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.202 (Depositor), 0.210 (DCC) 
• R-Value Work:  0.176 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.177 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 82.05	α = 90
b = 40.303	β = 113.22
c = 48.347	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-07-04 
Deposition Author(s): Chung, C., Lamotte, Y., Donche, F., Bouillot, A., Mirguet, O.

Revision History  

• Version 1.0: 2012-07-04
  Type: Initial release
  
• Version 1.1: 2019-05-15
  Changes: Data collection, Experimental preparation, Other
• Version 1.2: 2024-05-08
  Changes: Data collection, Database references, Derived calculations, Other