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- EMDB-66588: Cryo-EM map of Arabidopsis thaliana SLY1-ASK1 -

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Open data


ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-66588
TitleCryo-EM map of Arabidopsis thaliana SLY1-ASK1
Map data
Sample
  • Complex: hetedimer of SLY1-ASK1
  • Other: SLY1
  • Other: ASK1
KeywordsComplex / PLANT PROTEIN
Biological speciesArabidopsis thaliana (thale cress)
Methodsingle particle reconstruction / cryo EM / Resolution: 4.21 Å
AuthorsWan LH
Funding support China, 1 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)32000900 China
CitationJournal: To Be Published
Title: CryoEM map of SLY1-ASK1 complex at 4.25 Angstroms resolution.
Authors: Wan LH
History
DepositionOct 13, 2025-
Header (metadata) releaseJul 8, 2026-
Map releaseJul 8, 2026-
UpdateJul 8, 2026-
Current statusJul 8, 2026Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_66588.png

Downloads & links

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Map

FileDownload / File: emd_66588.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.)
0.92 Å/pix.
x 256 pix.
= 235.52 Å		0.92 Å/pix.
x 256 pix.
= 235.52 Å		0.92 Å/pix.
x 256 pix.
= 235.52 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.92 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 3.0
Minimum - Maximum-0.103316136 - 9.913607000000001
Average (Standard dev.)-0.03855431 (±0.20922077)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions256256256
Spacing256256256
CellA=B=C: 235.52 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #1

Fileemd_66588_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #2

Fileemd_66588_half_map_2.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : hetedimer of SLY1-ASK1

EntireName: hetedimer of SLY1-ASK1
Components
  • Complex: hetedimer of SLY1-ASK1
  • Other: SLY1
  • Other: ASK1

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Supramolecule #1: hetedimer of SLY1-ASK1

SupramoleculeName: hetedimer of SLY1-ASK1 / type: complex / ID: 1 / Parent: 0
Source (natural)Organism: Arabidopsis thaliana (thale cress)

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Macromolecule #1: SLY1

MacromoleculeName: SLY1 / type: other / ID: 1 / Classification: other
Source (natural)Organism: Arabidopsis thaliana (thale cress)
SequenceString:
MKRSTTDSDL AGDAHNETNK KMKSTEEEEI GFSNLDENLV YEVLKHVDAK TLAMSSCVSK IWHKTAQDER LWELICTRHW TNIGCGQNQL RSVVLALGGF RRLHSLYLWP LSKPNPRARF GKDELKLTLS LLSIRYYKKM SFTKRPLPES K

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Macromolecule #2: ASK1

MacromoleculeName: ASK1 / type: other / ID: 2 / Classification: other
Source (natural)Organism: Arabidopsis thaliana (thale cress)
SequenceString:
MSAKKIVLKS SDGESFEVEE AVALESQTIA HMVEDDCVDN GVPLPNVTSK ILAKVIEYCK RHVEAAASKA EAVEGAATSD DDLKAWDADF MKIDQATLFE LILAANYLNI KNLLDLTCQT VADMIKGKTP EEIRTTFNIK NDFTPEEEEE VRRENQWAFE

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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: 8
VitrificationCryogen name: METHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOCONTINUUM (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: 2.5 µm / Nominal defocus min: 1.0 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 reconstructionResolution.type: BY AUTHOR / Resolution: 4.21 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 392747
Initial angle assignmentType: ANGULAR RECONSTITUTION
Final angle assignmentType: ANGULAR RECONSTITUTION / Software - Name: cryoSPARC
FSC plot (resolution estimation)

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