8FAC

Structure of the leucine-rich repeat kinase 1 monomer


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.92 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structure and regulation of full-length human leucine-rich repeat kinase 1.

Metcalfe, R.D.Martinez Fiesco, J.A.Bonet-Ponce, L.Kluss, J.H.Cookson, M.R.Zhang, P.

(2023) Nat Commun 14: 4797-4797

  • DOI: https://doi.org/10.1038/s41467-023-40532-2
  • Primary Citation of Related Structures:  
    8FAC

  • PubMed Abstract: 

    The human leucine-rich repeat kinases (LRRKs), LRRK1 and LRRK2 are large and unusually complex multi-domain kinases, which regulate fundamental cellular processes and have been implicated in human disease. Structures of LRRK2 have recently been determined, but the structure and molecular mechanisms regulating the activity of the LRRK1 as well as differences in the regulation of LRRK1 and LRRK2 remain unclear. Here, we report a cryo-EM structure of the LRRK1 monomer and a lower-resolution cryo-EM map of the LRRK1 dimer. The monomer structure, in which the kinase is in an inactive conformation, reveals key interdomain interfaces that control kinase activity as we validate experimentally. Both the LRRK1 monomer and dimer are structurally distinct compared to LRRK2. Overall, our results provide structural insights into the activation of the human LRRKs, which advance our understanding of their physiological and pathological roles.


  • Organizational Affiliation

    Center for Structural Biology, Center for Cancer Research, National Cancer Institute, Frederick, MD, 21702, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Leucine-rich repeat serine/threonine-protein kinase 12,048Homo sapiensMutation(s): 0 
Gene Names: LRRK1KIAA1790
EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q38SD2 (Homo sapiens)
Explore Q38SD2 
Go to UniProtKB:  Q38SD2
PHAROS:  Q38SD2
GTEx:  ENSG00000154237 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ38SD2
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GDP
Query on GDP

Download Ideal Coordinates CCD File 
B [auth A]GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.92 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesZIA BC 011744

Revision History  (Full details and data files)

  • Version 1.0: 2023-08-16
    Type: Initial release