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- EMDB-50106: Artificial membrane protein TMHC4_R (ROCKET) -

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Basic information

Entry
Database: EMDB / ID: EMD-50106
TitleArtificial membrane protein TMHC4_R (ROCKET)
Map data
Sample
  • Organelle or cellular component: Artificial membrane protein TMHC4_R (ROCKET)
    • Protein or peptide: TMHC4_R (ROCKET)
KeywordsSynthetic construct / membrane protein / artificial protein
Biological speciessynthetic construct (others)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.9 Å
AuthorsAbramsson ML / Anden O / Howard RJ / Lindahl E / Landreh M
Funding support Sweden, 2 items
OrganizationGrant numberCountry
Swedish Research Council Sweden
Knut and Alice Wallenberg Foundation Sweden
CitationJournal: To Be Published
Title: Engineering cardiolipin binding to an artificial membrane protein
Authors: Abramsson M / Corey RA / Skerle J / Persson L / Anden O / Oluwole AO / Howard RJ / Lindahl E / Robinson CV / Strisovsky K / Marklund EG / Drew D / Stansfeld PJ / Landreh M
History
DepositionApr 16, 2024-
Header (metadata) releaseMay 8, 2024-
Map releaseMay 8, 2024-
UpdateMay 8, 2024-
Current statusMay 8, 2024Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_50106.png

Downloads & links

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Map

FileDownload / File: emd_50106.map.gz / Format: CCP4 / Size: 512 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Voxel sizeX=Y=Z: 0.5076 Å
Density
Contour LevelBy AUTHOR: 0.0014
Minimum - Maximum-0.0026133736 - 0.0051438324
Average (Standard dev.)0.0000131783045 (±0.00012679094)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions512512512
Spacing512512512
CellA=B=C: 259.8912 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_50106_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_50106_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_50106_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 : Artificial membrane protein TMHC4_R (ROCKET)

EntireName: Artificial membrane protein TMHC4_R (ROCKET)
Components
  • Organelle or cellular component: Artificial membrane protein TMHC4_R (ROCKET)
    • Protein or peptide: TMHC4_R (ROCKET)

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Supramolecule #1: Artificial membrane protein TMHC4_R (ROCKET)

SupramoleculeName: Artificial membrane protein TMHC4_R (ROCKET) / type: organelle_or_cellular_component / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: synthetic construct (others)
Molecular weightTheoretical: 100.40 kDa/nm

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Macromolecule #1: TMHC4_R (ROCKET)

MacromoleculeName: TMHC4_R (ROCKET) / type: protein_or_peptide / ID: 1 / Enantiomer: LEVO
Source (natural)Organism: synthetic construct (others)
Recombinant expressionOrganism: Escherichia coli BL21(DE3) (bacteria)
SequenceString: MSKDTEDSRK IWRTIMLLLV FAILLSAIIW YQITTNPDTS QIATLLSMQL LLIALMLVVI ALLLSRQTEQ VAESIRRDVS ALAYVMLGLL LSLLNRLSLA AEAYKKAIEL DPNDALAWLL LGSVLEKLKR LDEAAEAYKK AIELKPNDAS AWKELGKVLE KLGRLDEAAE ...String:
MSKDTEDSRK IWRTIMLLLV FAILLSAIIW YQITTNPDTS QIATLLSMQL LLIALMLVVI ALLLSRQTEQ VAESIRRDVS ALAYVMLGLL LSLLNRLSLA AEAYKKAIEL DPNDALAWLL LGSVLEKLKR LDEAAEAYKK AIELKPNDAS AWKELGKVLE KLGRLDEAAE AYKKAIELDP EDAEAWKELG KVLEKLGRLD EAAEAYKKAI ELDPNDLEHH HHHH

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation state3D array

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Sample preparation

BufferpH: 8
GridModel: Quantifoil R1.2/1.3 / Material: COPPER / Mesh: 300 / Support film - Material: CARBON / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK IV

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Nominal defocus max: 1.8 µm / Nominal defocus min: 0.6 µm
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 60.0 e/Å2
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Startup modelType of model: INSILICO MODEL
Initial angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION (ver. 4)
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION (ver. 4)
Final reconstructionApplied symmetry - Point group: C4 (4 fold cyclic) / Resolution.type: BY AUTHOR / Resolution: 3.9 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 4) / Number images used: 98000
FSC plot (resolution estimation)

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