6AZ0

Mitochondrial ATPase Protease YME1


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structure of the mitochondrial inner membrane AAA+ protease YME1 gives insight into substrate processing.

Puchades, C.Rampello, A.J.Shin, M.Giuliano, C.J.Wiseman, R.L.Glynn, S.E.Lander, G.C.

(2017) Science 358

  • DOI: 10.1126/science.aao0464
  • Primary Citation of Related Structures:  
    6AZ0

  • PubMed Abstract: 
  • We present an atomic model of a substrate-bound inner mitochondrial membrane AAA+ quality control protease in yeast, YME1. Our ~3.4-angstrom cryo-electron microscopy structure reveals how the adenosine triphosphatases (ATPases) form a closed spiral staircase encircling an unfolded substrate, directing it toward the flat, symmetric protease ring ...

    We present an atomic model of a substrate-bound inner mitochondrial membrane AAA+ quality control protease in yeast, YME1. Our ~3.4-angstrom cryo-electron microscopy structure reveals how the adenosine triphosphatases (ATPases) form a closed spiral staircase encircling an unfolded substrate, directing it toward the flat, symmetric protease ring. Three coexisting nucleotide states allosterically induce distinct positioning of tyrosines in the central channel, resulting in substrate engagement and translocation to the negatively charged proteolytic chamber. This tight coordination by a network of conserved residues defines a sequential, around-the-ring adenosine triphosphate hydrolysis cycle that results in stepwise substrate translocation. A hingelike linker accommodates the large-scale nucleotide-driven motions of the ATPase spiral relative to the planar proteolytic base. The translocation mechanism is likely conserved for other AAA+ ATPases.


    Organizational Affiliation

    Department of Integrative Structural and Computational Biology, The Scripps Research Institute HZ 175, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA. glander@scripps.edu steven.glynn@stonybrook.edu.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial inner membrane i-AAA protease supercomplex subunit YME1 ABCDEF439Saccharomyces cerevisiae RM11-1aMutation(s): 0 
Gene Names: SCRG_02514
Find proteins for B3LL85 (Saccharomyces cerevisiae (strain RM11-1a))
Explore B3LL85 
Go to UniProtKB:  B3LL85
Protein Feature View
Expand
  • Reference Sequence
  • Find similar proteins by:  Sequence   |   Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
poly(UNK) G10Escherichia coliMutation(s): 0 
Protein Feature View
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 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 Institute of Biomedical Imaging and Bioengineering (NIH/NIBIB)United StatesDP2EB020402
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesT32GM008468
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)United StatesR01NS095892
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01GM115898
American Heart AssociationUnited States--
National Institutes of Health/Office of the DirectorUnited StatesS10OD021634
pewUnited States--

Revision History  (Full details and data files)

  • Version 1.0: 2017-11-15
    Type: Initial release
  • Version 1.1: 2017-12-06
    Changes: Author supporting evidence, Other
  • Version 1.2: 2019-12-11
    Changes: Author supporting evidence
  • Version 1.3: 2019-12-18
    Changes: Other