9E68 | pdb_00009e68

Cryo-EM structure of MscS/YnaI chimera in DOPC nanodiscs


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Lipid interactions and gating hysteresis suggest a physiological role for mechanosensitive channel YnaI.

Will, N.Hiotis, G.Nakayama, Y.Angiulli, G.Zhou, Z.Cox, C.D.Martinac, B.Walz, T.

(2025) Nat Commun 16: 7472-7472

  • DOI: https://doi.org/10.1038/s41467-025-62805-8
  • Primary Citation of Related Structures:  
    9E62, 9E63, 9E64, 9E65, 9E66, 9E67, 9E68

  • PubMed Abstract: 

    YnaI is a member of the family of bacterial MscS (mechanosensitive channel of small conductance)-like channels. Channel gating upon hypoosmotic stress and the role of lipids in this process have been extensively studied for MscS, but are less well understood for YnaI, which features two additional transmembrane helices. Here, we combined cryogenic electron microscopy, molecular dynamics simulations and patch-clamp electrophysiology to advance our understanding of YnaI. The two additional helices move the lipid-filled hydrophobic pockets in YnaI further away from the lipid bilayer and change the function of the pocket lipids from being a critical gating element in MscS to being more of a structural element in YnaI. Unlike MscS, YnaI shows pronounced gating hysteresis and remains open to a substantially lower membrane tension than is needed to initially open the channel. Thus, at near-lytic membrane tension, both MscL and YnaI will open, but while MscL has a large pore and must close quickly to minimize loss of essential metabolites, YnaI only conducts ions and can thus remain open for longer to continue to facilitate pressure equilibration across the membrane.


  • Organizational Affiliation

    Laboratory of Molecular Electron Microscopy, The Rockefeller University, New York, NY, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
MscS/YnaI chimera307Escherichia coliMutation(s): 0 
Gene Names: mscSyggBb2924JW2891ynaIZ2437ECs1912
UniProt
Find proteins for P0AEB6 (Escherichia coli O157:H7)
Explore P0AEB6 
Go to UniProtKB:  P0AEB6
Find proteins for P0C0S1 (Escherichia coli (strain K12))
Explore P0C0S1 
Go to UniProtKB:  P0C0S1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsP0C0S1P0AEB6
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTCoot
MODEL REFINEMENTPHENIX
RECONSTRUCTIONcryoSPARC4.5

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01 GM144581

Revision History  (Full details and data files)

  • Version 1.0: 2025-08-27
    Type: Initial release