9M1L | pdb_00009m1l

Cryo-EM structure of the TBC-DE-Arl2-alpha-beta-tubulin complex with GTP


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.55 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural dissection of alpha beta-tubulin heterodimer assembly and disassembly by human tubulin-specific chaperones.

Seong, Y.Kim, H.Byun, K.Park, Y.W.Roh, S.H.

(2025) Science 390: eady2708-eady2708

  • DOI: https://doi.org/10.1126/science.ady2708
  • Primary Citation of Related Structures:  
    9M1I, 9M1J, 9M1K, 9M1L, 9M1M, 9M1N

  • PubMed Abstract: 

    Microtubule assembly requires a set of chaperones known as tubulin-binding cofactors (TBCs). We used cryo-electron microscopy to visualize how human TBCD, TBCE, TBCC, and guanosine triphosphatase (GTPase) Arl2 mediate αβ-tubulin assembly and disassembly. We captured multiple conformational states, revealing how TBCs orchestrate tubulin heterodimer biogenesis. TBCD stabilizes monomeric β-tubulin and scaffolds the other cofactors. Guanosine triphosphate (GTP) binding to Arl2 induces conformational changes that toggle the complex between assembly and disassembly. TBCD and TBCE guide α- and β-tubulin into a partially assembled interface, and TBCC, acting as a molecular clamp, completes the heterodimer. TBCD also functions as a GTPase activating protein for β-tubulin. β-tubulin GTP hydrolysis is coupled to Arl2's GTPase activity, establishing a checkpoint that ensures that only fully matured heterodimers proceed. These findings provide a structural framework for tubulin heterodimer biogenesis and recycling, supporting cytoskeletal proteostasis.


  • Organizational Affiliation
    • School of Biological Sciences, Seoul National University, Seoul, Republic of Korea.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tubulin-specific chaperone DA [auth D]1,192Homo sapiensMutation(s): 0 
Gene Names: TBCDKIAA0988SSD1TFCDPP1096
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BTW9 (Homo sapiens)
Explore Q9BTW9 
Go to UniProtKB:  Q9BTW9
PHAROS:  Q9BTW9
GTEx:  ENSG00000141556 
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UniProt GroupQ9BTW9
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
ADP-ribosylation factor-like protein 2B [auth G]184Homo sapiensMutation(s): 0 
Gene Names: ARL2
UniProt & NIH Common Fund Data Resources
Find proteins for P36404 (Homo sapiens)
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Go to UniProtKB:  P36404
PHAROS:  P36404
GTEx:  ENSG00000213465 
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UniProt GroupP36404
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Tubulin-specific chaperone EC [auth E]527Homo sapiensMutation(s): 0 
Gene Names: TBCE
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Find proteins for Q15813 (Homo sapiens)
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PHAROS:  Q15813
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UniProt GroupQ15813
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Tubulin alpha-1B chainD [auth a]451Sus scrofaMutation(s): 0 
Gene Names: TUBA1B
EC: 3.6.5
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Find proteins for Q2XVP4 (Sus scrofa)
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  • Reference Sequence
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Tubulin beta chainE [auth b]444Sus scrofaMutation(s): 0 
Gene Names: TUBBTUBB5
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Find proteins for Q767L7 (Sus scrofa)
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UniProt GroupQ767L7
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.55 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Research Foundation (NRF, Korea)Korea, Republic Of--

Revision History  (Full details and data files)

  • Version 1.0: 2025-10-22
    Type: Initial release
  • Version 1.1: 2025-11-12
    Changes: Data collection, Database references