5YE5

structure of endo-lysosomal TRPML1 channel inserting into nanodisc

• PDB DOI: https://doi.org/10.2210/pdb5YE5/pdb
• EM Map EMD-6826: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Mus musculus
• Expression System: Homo sapiens
• Mutation(s): No 
• Membrane Protein: Yes  PDBTMMemProtMD


• Deposited: 2017-09-15 Released: 2017-11-15 
• Deposition Author(s): Yang, M., Gao, N.

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 5.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Biological Assembly 1  

Global Symmetry: Cyclic - C4  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 264.06 kDa 
• Atom Count: 7,852 
• Modelled Residue Count: 1,856 
• Deposited Residue Count: 2,320 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
mammalian endo-lysosomal TRPML1 channel	A, B, C, D	580	Mus musculus	Mutation(s): 0  Gene Names: Mcoln1 Membrane Entity: Yes
UniProt
Find proteins for Q99J21 (Mus musculus) Explore Q99J21  Go to UniProtKB:  Q99J21

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	E [auth A], F [auth A], G [auth B], H [auth B], I [auth C], J [auth C], K [auth D], L [auth D]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 5.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	2.0

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-11-15 
Deposition Author(s): Yang, M., Gao, N.

Revision History  

• Version 1.0: 2017-11-15
  Type: Initial release
  
• Version 1.1: 2017-11-22
  Changes: Database references
• Version 1.2: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary