8VSB | pdb_00008vsb

L-TGF-b3/GARP


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.93 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 8VSB

This is version 1.4 of the entry. See complete history

Literature

Dynamic allostery drives autocrine and paracrine TGF-beta signaling.

Jin, M.Seed, R.I.Cai, G.Shing, T.Wang, L.Ito, S.Cormier, A.Wankowicz, S.A.Jespersen, J.M.Baron, J.L.Carey, N.D.Campbell, M.G.Yu, Z.Tang, P.K.Cossio, P.Wen, W.Lou, J.Marks, J.Nishimura, S.L.Cheng, Y.

(2024) Cell 187: 6200

  • DOI: https://doi.org/10.1016/j.cell.2024.08.036
  • Primary Citation Related Structures: 
    8VS6, 8VSB, 8VSC, 8VSD

  • PubMed Abstract: 

    TGF-β, essential for development and immunity, is expressed as a latent complex (L-TGF-β) non-covalently associated with its prodomain and presented on immune cell surfaces by covalent association with GARP. Binding to integrin αvβ8 activates L-TGF-β1/GARP. The dogma is that mature TGF-β must physically dissociate from L-TGF-β1 for signaling to occur. Our previous studies discovered that αvβ8-mediated TGF-β autocrine signaling can occur without TGF-β1 release from its latent form. Here, we show that mice engineered to express TGF-β1 that cannot release from L-TGF-β1 survive without early lethal tissue inflammation, unlike those with TGF-β1 deficiency. Combining cryogenic electron microscopy with cell-based assays, we reveal a dynamic allosteric mechanism of autocrine TGF-β1 signaling without release where αvβ8 binding redistributes the intrinsic flexibility of L-TGF-β1 to expose TGF-β1 to its receptors. Dynamic allostery explains the TGF-β3 latency/activation mechanism and why TGF-β3 functions distinctly from TGF-β1, suggesting that it broadly applies to other flexible cell surface receptor/ligand systems.


  • Organizational Affiliation
    • Department of Biochemistry and Biophysics, University of California, San Francisco (UCSF), San Francisco, CA, USA.

Macromolecule Content 

  • Total Structure Weight: 155.77 kDa 
  • Atom Count: 7,519 
  • Modeled Residue Count: 969 
  • Deposited Residue Count: 1,386 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Transforming growth factor beta-3 proprotein
A, B
389Homo sapiensMutation(s): 0 
Gene Names: TGFB3
UniProt & NIH Common Fund Data Resources
Find proteins for P10600 (Homo sapiens)
Explore P10600 
Go to UniProtKB:  P10600
PHAROS:  P10600
GTEx:  ENSG00000119699 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP10600
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Transforming growth factor beta activator LRRC32C [auth I]608Homo sapiensMutation(s): 0 
Gene Names: LRRC32D11S833E
UniProt & NIH Common Fund Data Resources
Find proteins for Q14392 (Homo sapiens)
Explore Q14392 
Go to UniProtKB:  Q14392
PHAROS:  Q14392
GTEx:  ENSG00000137507 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ14392
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.93 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 Heart, Lung, and Blood Institute (NIH/NHLBI)United StatesHL134183

Revision History  (Full details and data files)

  • Version 1.0: 2024-09-11
    Type: Initial release
  • Version 1.1: 2024-10-02
    Changes: Data collection, Database references
  • Version 1.2: 2024-11-06
    Changes: Data collection, Structure summary
  • Version 1.3: 2024-11-13
    Changes: Data collection, Database references
  • Version 1.4: 2024-11-20
    Changes: Data collection, Database references