8Y6K | pdb_00008y6k

Cryo-EM structure of full-length MICAL1 in the autoinhibited state

  • Classification: OXIDOREDUCTASE
  • Organism(s): Homo sapiens
  • Expression System: Homo sapiens
  • Mutation(s): No 

  • Deposited: 2024-02-02 Released: 2024-08-28 
  • Deposition Author(s): Niu, F., Wei, Z.
  • Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.94 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Models: experimental
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wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Autoinhibition and relief mechanisms for MICAL monooxygenases in F-actin disassembly.

Lin, L.Dong, J.Xu, S.Xiao, J.Yu, C.Niu, F.Wei, Z.

(2024) Nat Commun 15: 6824-6824

  • DOI: https://doi.org/10.1038/s41467-024-50940-7
  • Primary Citation of Related Structures:  
    8Y6K

  • PubMed Abstract: 

    MICAL proteins represent a unique family of actin regulators crucial for synapse development, membrane trafficking, and cytokinesis. Unlike classical actin regulators, MICALs catalyze the oxidation of specific residues within actin filaments to induce robust filament disassembly. The potent activity of MICALs requires tight control to prevent extensive damage to actin cytoskeleton. However, the molecular mechanism governing MICALs' activity regulation remains elusive. Here, we report the cryo-EM structure of MICAL1 in the autoinhibited state, unveiling a head-to-tail interaction that allosterically blocks enzymatic activity. The structure also reveals the assembly of C-terminal domains via a tripartite interdomain interaction, stabilizing the inhibitory conformation of the RBD. Our structural, biochemical, and cellular analyses elucidate a multi-step mechanism to relieve MICAL1 autoinhibition in response to the dual-binding of two Rab effectors, revealing its intricate activity regulation mechanisms. Furthermore, our mutagenesis study of MICAL3 suggests the conserved autoinhibition and relief mechanisms among MICALs.


  • Organizational Affiliation

    Shenzhen Key Laboratory of Biomolecular Assembling and Regulation, Shenzhen, Guangdong, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
[F-actin]-monooxygenase MICAL11,067Homo sapiensMutation(s): 0 
Gene Names: MICAL1MICALNICAL
EC: 1.14.13.225 (PDB Primary Data), 1.6.3.1 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for Q8TDZ2 (Homo sapiens)
Explore Q8TDZ2 
Go to UniProtKB:  Q8TDZ2
PHAROS:  Q8TDZ2
GTEx:  ENSG00000135596 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8TDZ2
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.94 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC3.1
MODEL REFINEMENTPHENIX1.18.2

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31971131
National Natural Science Foundation of China (NSFC)China32170697

Revision History  (Full details and data files)

  • Version 1.0: 2024-08-28
    Type: Initial release
  • Version 2.0: 2024-09-25
    Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Structure summary