8T6F

Crystal structure of human MBP-Myeloid cell leukemia 1 (Mcl-1) in complex with BRD810 inhibitor

• PDB DOI: https://doi.org/10.2210/pdb8T6F/pdb

• Classification: APOPTOSIS
• Organism(s): Escherichia coli K-12, Homo sapiens
• Expression System: Escherichia coli O157:H7
• Mutation(s): Yes 


• Deposited: 2023-06-15 Released: 2024-06-19 
• Deposition Author(s): Poncet-Montange, G., Lemke, C.T.
• Funding Organization(s): Other private

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.56 Å
• R-Value Free: 0.218 
• R-Value Work: 0.188 
• R-Value Observed: 0.190 

Re-refinement Note

This entry reflects an alternative modeling of the original data in: 4WGI

Literature

BRD810 is a novel highly selective MCL1 inhibitor with optimized in vivo clearance and robust efficacy in solid and hematological tumor models

Rauh, U., Wei, G., Serrano-Wu, M., Kosmidis, G., Kaulfuss, S., Siegel, F., Thede, K., McFarland, J., Poncet-Montange, G., Lemke, T.L., Werbeck, N., Nowak-Reppel, K., Pilari, S., Menz, S., Ocker, M., Kaushik, V., Hubbard, B., Ziegelbauer, K., Golub, T.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)

Macromolecule Content

• Total Structure Weight: 58.61 kDa 
• Atom Count: 4,633 
• Modelled Residue Count: 518 
• Deposited Residue Count: 518 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Maltose/maltodextrin-binding periplasmic protein/Induced myeloid leukemia cell differentiation protein Mcl-1 Chimera	A	518	Escherichia coli K-12, Homo sapiens This entity is chimeric	Mutation(s): 3  Gene Names: malE, b4034, JW3994, MCL1, BCL2L3
UniProt & NIH Common Fund Data Resources
Find proteins for P0AEX9 (Escherichia coli (strain K12)) Explore P0AEX9  Go to UniProtKB:  P0AEX9
Find proteins for Q07820 (Homo sapiens) Explore Q07820  Go to UniProtKB:  Q07820
PHAROS:  Q07820 GTEx:  ENSG00000143384
UniProt Groups	P0AEX9Q07820

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose	B	2		N/A

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
YI7 (Subject of Investigation/LOI)	D [auth A]	(3aM,9S,15R)-4-chloro-3-ethyl-7-{3-[(6-fluoronaphthalen-1-yl)oxy]propyl}-2-methyl-15-[2-(morpholin-4-yl)ethyl]-2,10,11,12,13,15-hexahydropyrazolo[4',3':9,10][1,6]oxazacycloundecino[8,7,6-hi]indole-8-carboxylic acid C39 H44 Cl F N4 O5 RQXSLNDYCDRXAC-MGBGTMOVSA-N
PGE	F [auth A]	TRIETHYLENE GLYCOL C6 H14 O4 ZIBGPFATKBEMQZ-UHFFFAOYSA-N
DMS	E [auth A]	DIMETHYL SULFOXIDE C2 H6 O S IAZDPXIOMUYVGZ-UHFFFAOYSA-N
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.56 Å
• R-Value Free: 0.218 
• R-Value Work: 0.188 
• R-Value Observed: 0.190 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 98.301	α = 90
b = 136.957	β = 90
c = 38.257	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
DIALS	data reduction
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-06-19 
Deposition Author(s): Poncet-Montange, G., Lemke, C.T.

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Funding Organization	Location	Grant Number
Other private	United States	--

Revision History  

• Version 1.0: 2024-06-19
  Type: Initial release