7AMH

SmBRD3(2), Second Bromodomain of Bromodomain 3 from Schistosoma mansoni in complex with DM-A-33, an iBET726 analogue

• PDB DOI: https://doi.org/10.2210/pdb7AMH/pdb

• Classification: PROTEIN BINDING
• Organism(s): Schistosoma mansoni
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2020-10-08 Released: 2021-10-20 
• Deposition Author(s): McArdle, D., Schiedel, M., McDonough, M.A., Conway, S.J.
• Funding Organization(s): Biotechnology and Biological Sciences Research Council (BBSRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.86 Å
• R-Value Free: 0.251 
• R-Value Work: 0.217 
• R-Value Observed: 0.219 

Literature

SBM3_2, Second Bromodomain of Bromodomain 3 from Schistosoma mansoni in complex with DM1, an iBET726 analogue

McArdle, D.J.B., Schiedel, M., McDonough, M.A., Conway, S.J.

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 30.97 kDa 
• Atom Count: 2,170 
• Modelled Residue Count: 226 
• Deposited Residue Count: 258 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative bromodomain-containing protein 3, brd3	A, B	129	Schistosoma mansoni	Mutation(s): 0
UniProt
Find proteins for A0A5K4ESD7 (Schistosoma mansoni) Explore A0A5K4ESD7  Go to UniProtKB:  A0A5K4ESD7

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
RN5 (Subject of Investigation/LOI)	C [auth A], D [auth B]	4-{(2S, 4R)-1-acetyl-4-[(1-benzothiophen-6-yl)amino]-2-methyl-1,2,3,4-tetrahydroquinolin-6-yl}benzoic acid C27 H24 N2 O3 S PSXHCEJOKMTHEO-UPCLLVRISA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.86 Å
• R-Value Free: 0.251 
• R-Value Work: 0.217 
• R-Value Observed: 0.219 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.201	α = 90
b = 84.111	β = 90
c = 126.736	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2021-10-20 
Deposition Author(s): McArdle, D., Schiedel, M., McDonough, M.A., Conway, S.J.

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Funding Organization	Location	Grant Number
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	BB/S507015/1

Revision History  

• Version 1.0: 2021-10-20
  Type: Initial release
  
• Version 1.1: 2024-01-31
  Changes: Data collection, Refinement description