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- EMDB-49483: Artemia ferritin from cell-free lysate -

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Open data


ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-49483
TitleArtemia ferritin from cell-free lysate
Map data
Sample
  • Complex: Ferritin
    • Protein or peptide: ferritin
Keywordsferritin / METAL BINDING PROTEIN
Function / homology
Function and homology information


ferroxidase / ferroxidase activity / ferric iron binding / iron ion transport / ferrous iron binding / intracellular iron ion homeostasis / cytoplasm
Similarity search - Function
Ferritin / Ferritin-like diiron domain / Ferritin-like diiron domain profile. / Ferritin/DPS protein domain / Ferritin-like domain / Ferritin-like / Ferritin-like superfamily
Similarity search - Domain/homology
Biological speciesArtemia franciscana (crustacean)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.8 Å
AuthorsEvans JE / Powell SM
Funding support United States, 1 items
OrganizationGrant numberCountry
Department of Energy (DOE, United States)EMSL S&T 60672 United States
CitationJournal: To Be Published
Title: Cryo-EM protein structure without purification
Authors: Evans JE / Powell SM
History
DepositionFeb 27, 2025-
Header (metadata) releaseMar 4, 2026-
Map releaseMar 4, 2026-
UpdateMar 4, 2026-
Current statusMar 4, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_49483.png

Downloads & links

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Map

FileDownload / File: emd_49483.map.gz / Format: CCP4 / Size: 64 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.84 Å/pix.
x 256 pix.
= 215.04 Å		0.84 Å/pix.
x 256 pix.
= 215.04 Å		0.84 Å/pix.
x 256 pix.
= 215.04 Å

Surface

Projections

Slices (1/3)

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Images are generated by Spider.

Voxel sizeX=Y=Z: 0.84 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.1
Minimum - Maximum-0.7080175 - 1.118984
Average (Standard dev.)0.0011275746 (±0.061535154)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions256256256
Spacing256256256
CellA=B=C: 215.04 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_49483_msk_1.map
Projections & Slices
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Additional map: #1

Fileemd_49483_additional_1.map
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Half map: #1

Fileemd_49483_half_map_1.map
Projections & Slices
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Half map: #2

Fileemd_49483_half_map_2.map
Projections & Slices
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Sample components

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Entire : Ferritin

EntireName: Ferritin
Components
  • Complex: Ferritin
    • Protein or peptide: ferritin

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Supramolecule #1: Ferritin

SupramoleculeName: Ferritin / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Details: Artemia ferritin cell-free expressed and structure determined direct from lysate
Source (natural)Organism: Artemia franciscana (crustacean)
Molecular weightTheoretical: 480 KDa

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Macromolecule #1: ferritin

MacromoleculeName: ferritin / type: protein_or_peptide / ID: 1 / Enantiomer: LEVO
SequenceString:
MALSRCRQNF HEESEAAINK QINMELYASY AYLAMFTYFD RDDVASPGFA KFFEEASKEE REHAEKLIKY LNKRGGRVIY HPIEKPMKQE WGSCLEAMED ALSMEKDVNE SLLKLHKVAS TREDPHLTKY LEDEFLDEQV ESIYKIAHHV TRLRRVGDGL GVYIFDKDLK N

UniProtKB: Ferritin

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.3 µm / Nominal defocus min: 0.3 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionApplied symmetry - Point group: O (octahedral) / Resolution.type: BY AUTHOR / Resolution: 2.8 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC (ver. 4) / Number images used: 90000
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
FSC plot (resolution estimation)

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