8SCV | pdb_00008scv

Crystal structure of IRAK4-HSA complexed with BMS-986126; 6-((5-CYANO-2-PYRIMIDINYL)AMINO)-N-((2R)-2-FLUORO-3-HYDROXHYLBUTYL)-4-(ISOPROPYLAMINO)NICOTINAMIDE

• PDB DOI: https://doi.org/10.2210/pdb8SCV/pdb

• Classification: TRANSFERASE/TRANSFERASE INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2023-04-05 Released: 2025-02-12 
• Deposition Author(s): Muckelbauer, J.K., Ghosh, K.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.69 Å
• R-Value Free: 
  0.261 (Depositor), 0.608 (DCC) 
• R-Value Work: 
  0.220 (Depositor), 0.583 (DCC) 
• R-Value Observed: 
  0.222 (Depositor) 

Starting Model: experimental

Literature

The Discovery of IRAK4 Inhibitor Clinical Candidates BMS-986126 and BMS-986147 for the Treatment of Autoimmune Diseases

Kumar, S.R., Dudhgoankar, S., Santella, J.B., Paidi, V.R.R., Nair, S., Sistla, R., Wu, H., Gardner, D.S., Stachura, S., Cavallaro, C.L., Brown, G.D., Pitts, W.J., Kempson, J., Tebben, A.J., Tokarski, J.S., Zhu, X., Carman, J.A., Foster, K., Caceres Cortes, J., Everlof, G., Galella, M.A., Sarjeant, A., Holloway, D.A., Fan, L., Li, X., Chaudhry, C., Locke, G., Chimalakondra, A., Mariappan, T.T., Ruepp, S., Elzinga, P.A., Saxena, A., Xie, D., Kiefer, S.E., Yan, C., Newitt, J.A., Ghosh, K., Anumula, R.K., Sack, J.S., Tino, J.A., Carter, P.H., Hynes, J., Duncia, J.V.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 69.46 kDa 
• Atom Count: 4,214 
• Modeled Residue Count: 553 
• Deposited Residue Count: 610 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Interleukin-1 receptor-associated kinase 4	A	305	Homo sapiens	Mutation(s): 0  Gene Names: IRAK4 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NWZ3 (Homo sapiens) Explore Q9NWZ3  Go to UniProtKB:  Q9NWZ3
PHAROS:  Q9NWZ3 GTEx:  ENSG00000198001

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Interleukin-1 receptor-associated kinase 4	B	305	Homo sapiens	Mutation(s): 0  Gene Names: IRAK4 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NWZ3 (Homo sapiens) Explore Q9NWZ3  Go to UniProtKB:  Q9NWZ3
PHAROS:  Q9NWZ3 GTEx:  ENSG00000198001

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZVG (Subject of Investigation/LOI)	C [auth A], E [auth B]	6-[(5-cyanopyrimidin-2-yl)amino]-N-[(2R)-2-fluoro-3-hydroxy-3-methylbutyl]-4-[(propan-2-yl)amino]pyridine-3-carboxamide C19 H24 F N7 O2 UFIWUTUQZFYHKK-OAHLLOKOSA-N
SO4	D [auth A], F [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Modified Residues  2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SEP	A	L-PEPTIDE LINKING	C3 H8 N O6 P		SER
TPO	A	L-PEPTIDE LINKING	C4 H10 N O6 P		THR

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.69 Å
• R-Value Free:  0.261 (Depositor), 0.608 (DCC) 
• R-Value Work:  0.220 (Depositor), 0.583 (DCC) 
• R-Value Observed: 0.222 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 86.289	α = 90
b = 103.754	β = 90
c = 139.753	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data reduction
SCALEPACK	data scaling
BUSTER	refinement

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-02-12 
Deposition Author(s): Muckelbauer, J.K., Ghosh, K.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2025-02-12
  Type: Initial release