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- EMDB-36979: CryoEM map of LonC protease heptamer (heated at 343K) -

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Basic information

Entry
Database: EMDB / ID: EMD-36979
TitleCryoEM map of LonC protease heptamer (heated at 343K)
Map dataCryoEM map of LonC protease (Heat at 343 K)
Sample
  • Complex: CryoEM structure of LonC protease hepatmer, heated at 343K
    • Protein or peptide: LonC heptamer (heated)
KeywordsLon proteases / chaperone / hepatmer / high temperature
Biological speciesMeiothermus taiwanensis (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.65 Å
AuthorsLi M / Hsieh K / Liu H / Zhang S / Gao Y / Gong Q / Zhang K / Chang C / Li S
Funding support China, 1 items
OrganizationGrant numberCountry
Other government China
CitationJournal: Fundam Res / Year: 2024
Title: Bifurcated assembly pathway and dual function of a Lon-like protease revealed by cryo-EM Analysis
Authors: Li M / Liu H / Hsieh KY / Zhang S / Gao Y / Gong Q / Zhang K / Chang CI / Li S
History
DepositionJul 31, 2023-
Header (metadata) releaseAug 7, 2024-
Map releaseAug 7, 2024-
UpdateAug 7, 2024-
Current statusAug 7, 2024Processing site: PDBj / Status: Released

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Structure visualization

Supplemental images

emd_36979.png

Downloads & links

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Map

FileDownload / File: emd_36979.map.gz / Format: CCP4 / Size: 144.7 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationCryoEM map of LonC protease (Heat at 343 K)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.2 Å/pix.
x 336 pix.
= 403.2 Å		1.2 Å/pix.
x 336 pix.
= 403.2 Å		1.2 Å/pix.
x 336 pix.
= 403.2 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.2 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.67
Minimum - Maximum-4.24517 - 6.1278944
Average (Standard dev.)0.0038239986 (±0.1441649)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions336336336
Spacing336336336
CellA=B=C: 403.2 Å
α=β=γ: 90.0 °

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Supplemental data

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Additional map: CryoEM map of LonC protease (Heat at 343 K)

Fileemd_36979_additional_1.map
AnnotationCryoEM map of LonC protease (Heat at 343 K)
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: CryoEM map of LonC protease (Heat at 343 K)

Fileemd_36979_half_map_1.map
AnnotationCryoEM map of LonC protease (Heat at 343 K)
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: CryoEM map of LonC protease (Heat at 343 K)

Fileemd_36979_half_map_2.map
AnnotationCryoEM map of LonC protease (Heat at 343 K)
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : CryoEM structure of LonC protease hepatmer, heated at 343K

EntireName: CryoEM structure of LonC protease hepatmer, heated at 343K
Components
  • Complex: CryoEM structure of LonC protease hepatmer, heated at 343K
    • Protein or peptide: LonC heptamer (heated)

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Supramolecule #1: CryoEM structure of LonC protease hepatmer, heated at 343K

SupramoleculeName: CryoEM structure of LonC protease hepatmer, heated at 343K
type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Meiothermus taiwanensis (bacteria)
Molecular weightTheoretical: 560 KDa

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Macromolecule #1: LonC heptamer (heated)

MacromoleculeName: LonC heptamer (heated) / type: protein_or_peptide / ID: 1 / Enantiomer: LEVO
SequenceString: MRLSYEALEW RTPIENSTEP VSLPPPPPFF GQERAREALE LAIRGGFHAY LVGPPSLGKH EALLAYLSTQ SVETPPDLLY VPLSERKVAV LTLPSGQEIH LAEAVEGLLL EVNRLDELFR QGSFLREKTQ LEARFKEARE QQLEALRREA QEAGFALSTN GERLELTGPG ...String:
MRLSYEALEW RTPIENSTEP VSLPPPPPFF GQERAREALE LAIRGGFHAY LVGPPSLGKH EALLAYLSTQ SVETPPDLLY VPLSERKVAV LTLPSGQEIH LAEAVEGLLL EVNRLDELFR QGSFLREKTQ LEARFKEARE QQLEALRREA QEAGFALSTN GERLELTGPG PVPAELSARL EEVTLGSLAA SAELEVALRR LRRDWALHYL NNRFEPLFQR FPQARAYLEA LRARLARYAE TGEPLDPAQW RPNLLTSSSS GTPPPIVYEP YATAPRLFGR LDYLVDRGVW STNVSLIRPG AVHRAQGGYL ILDALSLKRE GTWEAFKRAL RNGQVEPVTE PQAPAGLEVE PFPIQMQVIL VGTPEAFEGL EEDPAFSELF RIRAEFSPTL PASPENCTAL GGWLLAQGFQ LTQGGLTRLY DEARRMAEQR DRMDARLVEI RALAEEAAVL GGGLLTAESV EQAIAAREHR SFLSEEEFLR AVQEGVIRLR TTGRAVGEVN SLVVVEAAPY WGRPARLTAR AAPGRDHLIS IDREAGLGGQ IFHKAVLTLA GYLRSRYIEH GSLPVTISLA FEQNYVSIEG DSAGLAELVA ALSAIGNLPL RQDLAVTGAV DQTGKVLAVG AINAKVEGFF RVCKALGLSG TQGVILPEAN LANLTLRAEV LEAVRAGQFH IYAVETAEQA LEILAGARME GFRGLQEKIR AGLEAFARLE EGHDKEDREK LAAALEHHHH HH

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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

Concentration1.0 mg/mL
BufferpH: 7.5
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS GLACIOS
Image recordingFilm or detector model: FEI FALCON III (4k x 4k) / Average electron dose: 60.0 e/Å2
Electron beamAcceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 3.0 µm / Nominal defocus min: 2.0 µm

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Image processing

Particle selectionNumber selected: 292015
Startup modelType of model: NONE
Final reconstructionApplied symmetry - Point group: C7 (7 fold cyclic) / Resolution.type: BY AUTHOR / Resolution: 3.65 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC (ver. 3.2) / Number images used: 117163
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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