8GMD

CRYSTAL STRUCTURE OF AP2 ASSOCIATED KINASE 1 COMPLEXED WITH (5P)-3-({(8R)-5-[(4-aminopiperidin-1-yl)methyl]pyrrolo[2,1-f][1,2,4]triazin-4-yl}amino)-5-[2-(propan-2-yl)-2H-tetrazol-5-yl]phenol


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.232 
  • R-Value Observed: 0.233 

Starting Model: experimental
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Ligand Structure Quality Assessment 


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Literature

Discovery of pyrrolo[2,1- f ][1,2,4]triazine-based inhibitors of adaptor protein 2-associated kinase 1 for the treatment of pain.

Dzierba, C.D.Dasgupta, B.Karageorge, G.Kostich, W.Hamman, B.Allen, J.Esposito, K.M.Padmanabha, R.Grace, J.Lentz, K.Morrison, J.Morgan, D.Easton, A.Bourin, C.Browning, M.R.Rajamani, R.Good, A.Parker, D.D.Muckelbauer, J.K.Khan, J.Camac, D.Ghosh, K.Halan, V.Lippy, J.S.Santone, K.S.Denton, R.R.Westphal, R.Bristow, L.J.Conway, C.M.Bronson, J.J.Macor, J.E.

(2023) Med Chem Res : 1-7

  • DOI: https://doi.org/10.1007/s00044-023-03079-x
  • Primary Citation of Related Structures:  
    8GMC, 8GMD

  • PubMed Abstract: 

    Adaptor protein 2-associated kinase 1 (AAK1) is a member of the Ark1/Prk1 family of serine/threonine kinases and plays a role in modulating receptor endocytosis. AAK1 was identified as a potential therapeutic target for the treatment of neuropathic pain when it was shown that AAK1 knock out (KO) mice had a normal response to the acute pain phase of the mouse formalin model, but a reduced response to the persistent pain phase. Herein we report our early work investigating a series of pyrrolo[2,1- f ][1,2,4]triazines as part of our efforts to recapitulate this KO phenotype with a potent, small molecule inhibitor of AAK1. The synthesis, structure-activity relationships (SAR), and in vivo evaluation of these AAK1 inhibitors is described.


  • Organizational Affiliation

    Small Molecule Drug Discovery, Bristol Myers Squibb, Research and Development, 250 Water St, Cambridge, MA 02141 USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
AP2-associated protein kinase 1
A, B
318Homo sapiensMutation(s): 0 
Gene Names: AAK1KIAA1048
EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q2M2I8 (Homo sapiens)
Explore Q2M2I8 
Go to UniProtKB:  Q2M2I8
PHAROS:  Q2M2I8
GTEx:  ENSG00000115977 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2M2I8
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ZRR (Subject of Investigation/LOI)
Query on ZRR

Download Ideal Coordinates CCD File 
C [auth A],
G [auth B]
(5P)-3-({(8R)-5-[(4-aminopiperidin-1-yl)methyl]pyrrolo[2,1-f][1,2,4]triazin-4-yl}amino)-5-[2-(propan-2-yl)-2H-tetrazol-5-yl]phenol
C22 H28 N10 O
CNACSDYVLFCDEW-UHFFFAOYSA-N
SO4
Query on SO4

Download Ideal Coordinates CCD File 
D [auth A],
E [auth A],
F [auth A],
H [auth B],
I [auth B]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.232 
  • R-Value Observed: 0.233 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 75.09α = 90
b = 75.09β = 90
c = 315.27γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
HKL-2000data reduction
PHASERphasing
SCALEPACKdata scaling

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other private--

Revision History  (Full details and data files)

  • Version 1.0: 2023-07-12
    Type: Initial release
  • Version 1.1: 2023-10-25
    Changes: Data collection