6E1O

afTMEM16 reconstituted in nanodiscs in the presence of Ca2+ and ceramide 24:0


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.59 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural basis of Ca2+-dependent activation and lipid transport by a TMEM16 scramblase.

Falzone, M.E.Rheinberger, J.Lee, B.C.Peyear, T.Sasset, L.Raczkowski, A.M.Eng, E.T.Di Lorenzo, A.Andersen, O.S.Nimigean, C.M.Accardi, A.

(2019) Elife 8

  • DOI: https://doi.org/10.7554/eLife.43229
  • Primary Citation of Related Structures:  
    6DZ7, 6E0H, 6E1O

  • PubMed Abstract: 

    The lipid distribution of plasma membranes of eukaryotic cells is asymmetric and phospholipid scramblases disrupt this asymmetry by mediating the rapid, nonselective transport of lipids down their concentration gradients. As a result, phosphatidylserine is exposed to the outer leaflet of membrane, an important step in extracellular signaling networks controlling processes such as apoptosis, blood coagulation, membrane fusion and repair. Several TMEM16 family members have been identified as Ca 2+ -activated scramblases, but the mechanisms underlying their Ca 2+ -dependent gating and their effects on the surrounding lipid bilayer remain poorly understood. Here, we describe three high-resolution cryo-electron microscopy structures of a fungal scramblase from Aspergillus fumigatus , afTMEM16, reconstituted in lipid nanodiscs. These structures reveal that Ca 2+ -dependent activation of the scramblase entails global rearrangement of the transmembrane and cytosolic domains. These structures, together with functional experiments, suggest that activation of the protein thins the membrane near the transport pathway to facilitate rapid transbilayer lipid movement.


  • Organizational Affiliation

    Department of Biochemistry, Weill Cornell Medical College, New York, United States.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Plasma membrane channel protein (Aqy1), putativeA [auth B],
B [auth A]
735Aspergillus fumigatus Af293Mutation(s): 0 
Gene Names: AFUA_4G02970
Membrane Entity: Yes 
UniProt
Find proteins for Q4WA18 (Aspergillus fumigatus (strain ATCC MYA-4609 / CBS 101355 / FGSC A1100 / Af293))
Explore Q4WA18 
Go to UniProtKB:  Q4WA18
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ4WA18
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 5 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
8K6
Query on 8K6

Download Ideal Coordinates CCD File 
J [auth B],
S [auth A]
Octadecane
C18 H38
RZJRJXONCZWCBN-UHFFFAOYSA-N
D12
Query on D12

Download Ideal Coordinates CCD File 
E [auth B]
F [auth B]
G [auth B]
H [auth B]
N [auth A]
E [auth B],
F [auth B],
G [auth B],
H [auth B],
N [auth A],
O [auth A],
P [auth A],
Q [auth A]
DODECANE
C12 H26
SNRUBQQJIBEYMU-UHFFFAOYSA-N
D10
Query on D10

Download Ideal Coordinates CCD File 
I [auth B],
R [auth A]
DECANE
C10 H22
DIOQZVSQGTUSAI-UHFFFAOYSA-N
HEX
Query on HEX

Download Ideal Coordinates CCD File 
K [auth B],
T [auth A]
HEXANE
C6 H14
VLKZOEOYAKHREP-UHFFFAOYSA-N
CA
Query on CA

Download Ideal Coordinates CCD File 
C [auth B],
D [auth B],
L [auth A],
M [auth A]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.59 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United States5R01GM106717

Revision History  (Full details and data files)

  • Version 1.0: 2019-02-06
    Type: Initial release
  • Version 1.1: 2019-12-18
    Changes: Author supporting evidence, Other
  • Version 1.2: 2024-03-13
    Changes: Data collection, Database references, Derived calculations