Structure of ULK1 bound to a potent inhibitor

Experimental Data Snapshot

  • Resolution: 1.88 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.194 

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Structure of the Human Autophagy Initiating Kinase ULK1 in Complex with Potent Inhibitors.

Lazarus, M.B.Novotny, C.J.Shokat, K.M.

(2015) ACS Chem Biol 10: 257-261

  • DOI: https://doi.org/10.1021/cb500835z
  • Primary Citation of Related Structures:  
    4WNO, 4WNP

  • PubMed Abstract: 

    Autophagy is a conserved cellular process that involves the degradation of cellular components for energy maintenance and cytoplasmic quality control that has recently gained interest as a novel target for a variety of human diseases, including cancer. A prime candidate to determine the potential therapeutic benefit of targeting autophagy is the kinase ULK1, whose activation initiates autophagy. Here, we report the first structures of ULK1, in complex with multiple potent inhibitors. These structures show features unique to the enzyme and will provide a path for the rational design of selective compounds as cellular probes and potential therapeutics.

  • Organizational Affiliation

    Howard Hughes Medical Institute and Department of Cellular and Molecular Pharmacology, University of California, San Francisco , San Francisco, California 94158, United States.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Serine/threonine-protein kinase ULK1
A, B, C, D
287Homo sapiensMutation(s): 2 
Gene Names: ULK1KIAA0722
UniProt & NIH Common Fund Data Resources
Find proteins for O75385 (Homo sapiens)
Explore O75385 
Go to UniProtKB:  O75385
GTEx:  ENSG00000177169 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO75385
Sequence Annotations
  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
Query on TPO
A, B, C, D
Binding Affinity Annotations 
IDSourceBinding Affinity
3RJ Binding MOAD:  4WNP IC50: 8 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 1.88 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.194 
  • Space Group: P 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 100.41α = 90
b = 113.8β = 90
c = 100.63γ = 90
Software Package:
Software NamePurpose
iMOSFLMdata reduction
SCALAdata scaling

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-01-14
    Type: Initial release
  • Version 1.1: 2015-01-28
    Changes: Database references
  • Version 1.2: 2017-11-22
    Changes: Derived calculations, Other, Refinement description, Source and taxonomy, Structure summary
  • Version 1.3: 2023-12-27
    Changes: Data collection, Database references, Refinement description