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- EMDB-71686: Rox_LL cross alpha peptide filament -

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Open data


ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-71686
TitleRox_LL cross alpha peptide filament
Map data
Sample
  • Complex: ROX_LL cross alpha peptide paired helical filament
    • Protein or peptide: ACE-GLU-ALA-LEU-GLN-LEU-ALA-LYS-GLU-ALA-LEU-TYR-LEU-ALA-GLU-LYS-ALA-LEU-GLN-LEU-ALA-LYS
KeywordsDesigned cross alpha / peptide filament / Helical reconstruction / coiled coil / PROTEIN FIBRIL
Biological speciessynthetic construct (others)
Methodhelical reconstruction / cryo EM / Resolution: 3.8 Å
AuthorsDas A / Conticello VP / Wang F / Egelman EH
Funding support United States, 1 items
OrganizationGrant numberCountry
National Science Foundation (NSF, United States) United States
CitationJournal: To Be Published
Title: Rox_LL cross alpha peptide filament
Authors: Das A / Conticello VP / Wang F / Egelman EH / Paravastu AK / Dinakarapandian DK / Zuo X / Wang S
History
DepositionJul 13, 2025-
Header (metadata) releaseJul 29, 2026-
Map releaseJul 29, 2026-
UpdateJul 29, 2026-
Current statusJul 29, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_71686.png

Downloads & links

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Map

FileDownload / File: emd_71686.map.gz / Format: CCP4 / Size: 125 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.08 Å/pix.
x 320 pix.
= 345.6 Å		1.08 Å/pix.
x 320 pix.
= 345.6 Å		1.08 Å/pix.
x 320 pix.
= 345.6 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.08 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.121
Minimum - Maximum-0.69989157 - 1.30207
Average (Standard dev.)0.0015732513 (±0.027757837)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin-160-160-160
Dimensions320320320
Spacing320320320
CellA=B=C: 345.6 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #2

Fileemd_71686_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_71686_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 : ROX_LL cross alpha peptide paired helical filament

EntireName: ROX_LL cross alpha peptide paired helical filament
Components
  • Complex: ROX_LL cross alpha peptide paired helical filament
    • Protein or peptide: ACE-GLU-ALA-LEU-GLN-LEU-ALA-LYS-GLU-ALA-LEU-TYR-LEU-ALA-GLU-LYS-ALA-LEU-GLN-LEU-ALA-LYS

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Supramolecule #1: ROX_LL cross alpha peptide paired helical filament

SupramoleculeName: ROX_LL cross alpha peptide paired helical filament / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: synthetic construct (others)

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Macromolecule #1: ACE-GLU-ALA-LEU-GLN-LEU-ALA-LYS-GLU-ALA-LEU-TYR-LEU-ALA-GLU-LYS-A...

MacromoleculeName: ACE-GLU-ALA-LEU-GLN-LEU-ALA-LYS-GLU-ALA-LEU-TYR-LEU-ALA-GLU-LYS-ALA-LEU-GLN-LEU-ALA-LYS
type: protein_or_peptide / ID: 1 / Number of copies: 50 / Enantiomer: LEVO
Source (natural)Organism: synthetic construct (others)
Molecular weightTheoretical: 2.341787 KDa
SequenceString:
(ACE)EALQLAKEA LYLAEKALQL AK(NH2)

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Experimental details

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Structure determination

Methodcryo EM
Processinghelical reconstruction
Aggregation statefilament

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Sample preparation

BufferpH: 4
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: 2.0 µm / Nominal defocus min: 1.0 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Final reconstructionApplied symmetry - Helical parameters - Δz: 5.019 Å
Applied symmetry - Helical parameters - Δ&Phi: -172.3 °
Applied symmetry - Helical parameters - Axial symmetry: C1 (asymmetric)
Resolution.type: BY AUTHOR / Resolution: 3.8 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 1019695
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final angle assignmentType: NOT APPLICABLE
FSC plot (resolution estimation)

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