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- EMDB-7793: Thermostablilized dephosphorylated chicken CFTR -

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Basic information

Database: EMDB / ID: 7793
TitleThermostablilized dephosphorylated chicken CFTR
Map dataSharpened SuperRes PPase-treated chTS map w/o filter by local resolution
SampleCFTRCystic fibrosis transmembrane conductance regulator
  • Cystic fibrosis transmembrane conductance regulator
  • ligand
SourceGallus gallus (chicken)
Methodsingle particle reconstruction / cryo EM / 4.3 Å resolution
AuthorsFay JF / Riordan JR
CitationJournal: Biochemistry / Year: 2018
Title: Cryo-EM Visualization of an Active High Open Probability CFTR Anion Channel.
Authors: Jonathan F Fay / Luba A Aleksandrov / Timothy J Jensen / Liying L Cui / Joseph N Kousouros / Lihua He / Andrei A Aleksandrov / Drew S Gingerich / John R Riordan / James Z Chen
Validation ReportPDB-ID: 6d3r

SummaryFull reportAbout validation report
DateDeposition: Apr 16, 2018 / Header (metadata) release: May 30, 2018 / Map release: Oct 17, 2018 / Last update: Nov 7, 2018

Structure visualization

  • Surface view with section colored by density value
  • Surface level: 0.28
  • Imaged by UCSF Chimera
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  • Surface view colored by height
  • Surface level: 0.28
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: : PDB-6d3r
  • Surface level: 0.28
  • Imaged by UCSF Chimera
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Movie viewer
Structure viewerEM map:
Supplemental images

Downloads & links


Fileemd_7793.map.gz (map file in CCP4 format, 256001 KB)
Projections & slices

Image control

AxesZ (Sec.)Y (Row.)X (Col.)
400 pix
0.69 Å/pix.
= 275.462 Å
400 pix
0.69 Å/pix.
= 275.462 Å
400 pix
0.69 Å/pix.
= 275.462 Å



Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.68866 Å
Contour Level:0.28 (by author), 0.28 (movie #1):
Minimum - Maximum-0.58422506 - 1.126942
Average (Standard dev.)0.0034539183 (0.035053395)


Space Group Number1
Map Geometry
Axis orderXYZ
CellA=B=C: 275.46234 Å
α=β=γ: 90.0 deg.

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z0.6886550.6886550.688655
M x/y/z400400400
origin x/y/z0.0000.0000.000
length x/y/z275.462275.462275.462
start NX/NY/NZ000
MAP C/R/S123
start NC/NR/NS000
D min/max/mean-0.5841.1270.003

Supplemental data

Mask #1

Projections & Slices
Slices (1/2)
Density Histograms

Sample components

Entire CFTR

EntireName: CFTR / Number of components: 3

Component #1: cellular-component, CFTR

Cellular-componentName: CFTRCystic fibrosis transmembrane conductance regulator
Recombinant expression: No
SourceSpecies: Gallus gallus (chicken)

Component #2: protein, Cystic fibrosis transmembrane conductance regulator

ProteinName: Cystic fibrosis transmembrane conductance regulator / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 162.637438 kDa
SourceSpecies: Gallus gallus (chicken)
Source (engineered)Expression System: Cricetinae (hamsters)

Component #3: ligand, ADENOSINE-5'-TRIPHOSPHATE

LigandName: ADENOSINE-5'-TRIPHOSPHATE / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 0.507181 kDa

Experimental details

Sample preparation

SpecimenSpecimen state: particle / Method: cryo EM
Sample solutionpH: 7.4
VitrificationCryogen name: ETHANE

Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
ImagingMicroscope: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Electron dose: 48 e/Å2 / Illumination mode: FLOOD BEAM
LensImaging mode: BRIGHT FIELD
Specimen HolderModel: OTHER
CameraDetector: GATAN K2 SUMMIT (4k x 4k)

Image acquisition

Raw dataEMPIAR-10219 (Title: Cryo-electron microscopy data of thermostabilized avian CFTR
Data size: 10.0
Data #1: Binned Particle stacks and meta data for cryo-EM structures of phosphorylated and dephosphorylated avian CFTR [micrographs - single frame])

Image processing

ProcessingMethod: single particle reconstruction / Number of projections: 30219
3D reconstructionSoftware: cryoSPARC / Resolution: 4.3 Å / Resolution method: FSC 1/2 BIT CUT-OFF
FSC plot
(resolution estimation)

Atomic model buiding

Output model

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