6AYF

TRPML3/ML-SA1 complex at pH 7.4

  • Classification: TRANSPORT PROTEIN
  • Organism(s): Homo sapiens
  • Expression System: Trichoplusia ni
  • Mutation(s): No 
  • Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc

  • Deposited: 2017-09-08 Released: 2017-11-08 
  • Deposition Author(s): Zhou, X., Li, M., Su, D., Jia, Q., Li, H., Li, X., Yang, J.
  • Funding Organization(s): National Basic Research Program of China (973 Program), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Natural Science Foundation of China (NSFC), Top Talents Program of Yunnan Province, High-level Overseas Talents of Yunnan Province, China Youth 1000-Talent Program of the State Council of China, Beijing 14 Advanced Innovation Center for Structural Biology, Tsinghua-Peking Joint Center for Life Sciences

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.62 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history


Literature

Cryo-EM structures of the human endolysosomal TRPML3 channel in three distinct states.

Zhou, X.Li, M.Su, D.Jia, Q.Li, H.Li, X.Yang, J.

(2017) Nat Struct Mol Biol 24: 1146-1154

  • DOI: 10.1038/nsmb.3502
  • Primary Citation of Related Structures:  
    6AYG, 6AYF, 6AYE

  • PubMed Abstract: 
  • TRPML3 channels are mainly localized to endolysosomes and play a critical role in the endocytic pathway. Their dysfunction causes deafness and pigmentation defects in mice. TRPML3 activity is inhibited by low endolysosomal pH. Here we present cryo-electron microscopy (cryo-EM) structures of human TRPML3 in the closed, agonist-activated, and low-pH-inhibited states, with resolutions of 4 ...

    TRPML3 channels are mainly localized to endolysosomes and play a critical role in the endocytic pathway. Their dysfunction causes deafness and pigmentation defects in mice. TRPML3 activity is inhibited by low endolysosomal pH. Here we present cryo-electron microscopy (cryo-EM) structures of human TRPML3 in the closed, agonist-activated, and low-pH-inhibited states, with resolutions of 4.06, 3.62, and 4.65 Å, respectively. The agonist ML-SA1 lodges between S5 and S6 and opens an S6 gate. A polycystin-mucolipin domain (PMD) forms a luminal cap. S1 extends into this cap, forming a 'gating rod' that connects directly to a luminal pore loop, which undergoes dramatic conformational changes in response to low pH. S2 extends intracellularly and interacts with several intracellular regions to form a 'gating knob'. These unique structural features, combined with the results of electrophysiological studies, indicate a new mechanism by which luminal pH and other physiological modulators such as PIP 2 regulate TRPML3 by changing S1 and S2 conformations.


    Organizational Affiliation

    Key Laboratory of Animal Models and Human Disease Mechanisms of Chinese Academy of Sciences, Key Laboratory of Bioactive Peptides of Yunnan Province, and Ion Channel Research and Drug Development Center, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Mucolipin-3A, B, C, D558Homo sapiensMutation(s): 0 
Gene Names: MCOLN3
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for Q8TDD5 (Homo sapiens)
Explore Q8TDD5 
Go to UniProtKB:  Q8TDD5
PHAROS:  Q8TDD5
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.62 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Basic Research Program of China (973 Program)China2014CB910301
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01GM085234
National Natural Science Foundation of China (NSFC)China31370821
Top Talents Program of Yunnan ProvinceChina2011HA012
High-level Overseas Talents of Yunnan ProvinceChina--
China Youth 1000-Talent Program of the State Council of ChinaChina--
Beijing 14 Advanced Innovation Center for Structural BiologyChina--
Tsinghua-Peking Joint Center for Life SciencesChina--
National Natural Science Foundation of China (NSFC)China31570730

Revision History  (Full details and data files)

  • Version 1.0: 2017-11-08
    Type: Initial release
  • Version 1.1: 2017-11-22
    Changes: Database references
  • Version 1.2: 2017-12-06
    Changes: Author supporting evidence
  • Version 1.3: 2017-12-20
    Changes: Database references
  • Version 1.4: 2020-01-01
    Changes: Author supporting evidence
  • Version 1.5: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Data collection, Derived calculations, Structure summary