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- EMDB-78449: Leishmania tarentolae respiratory complex V (ATP synthase) F1/cen... -

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Basic information

Entry
Database: EMDB / ID: EMD-78449
TitleLeishmania tarentolae respiratory complex V (ATP synthase) F1/central-stalk
Map data
Sample
  • Complex: respiratory complex V (ATP synthase) F1/central-stalk
Keywordscomplex V / ATP synthase / Leishmania tarentolae / ELECTRON TRANSPORT
Biological speciesLeishmania tarentolae (eukaryote)
Methodsingle particle reconstruction / cryo EM / Resolution: 4.2 Å
AuthorsLiao YT / Chao L
Funding support United States, 1 items
OrganizationGrant numberCountry
Howard Hughes Medical Institute (HHMI) United States
CitationJournal: Mol.Cell / Year: 2026
Title: Conserved and divergent mitochondrial assemblies in kinetoplastid parasites
Authors: Solayman M / Liao YT / Calvo SE / Vacas AF / Papanastasiou M / Rivera KD / Mani D / Boyle BW / Deng FG / Betsinger CN / Carr SA / Chen MZ / Duraisingh MT / Fry MY / Goyal M / Issa TM / Kim M ...Authors: Solayman M / Liao YT / Calvo SE / Vacas AF / Papanastasiou M / Rivera KD / Mani D / Boyle BW / Deng FG / Betsinger CN / Carr SA / Chen MZ / Duraisingh MT / Fry MY / Goyal M / Issa TM / Kim M / Lian CG / Luce BE / Mian SY / Nguyen K / Paul AS / Samuelson J / Stefely JA / Udeshi ND / Mootha VK / Aphasizheva I / Chao LH / Aphasizhev R
History
DepositionAug 4, 2026-
Header (metadata) releaseOct 7, 2026-
Map releaseOct 7, 2026-
UpdateOct 7, 2026-
Current statusOct 7, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_78449.png

Downloads & links

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Map

FileDownload / File: emd_78449.map.gz / Format: CCP4 / Size: 421.9 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
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AxesZ (Sec.)Y (Row.)X (Col.)
0.74 Å/pix.
x 480 pix.
= 353.28 Å		0.74 Å/pix.
x 480 pix.
= 353.28 Å		0.74 Å/pix.
x 480 pix.
= 353.28 Å

Surface

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Images are generated by Spider.

Voxel sizeX=Y=Z: 0.736 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.0339
Minimum - Maximum-0.05088571 - 0.12607215
Average (Standard dev.)0.0017839491 (±0.007045155)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions480480480
Spacing480480480
CellA=B=C: 353.28 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_78449_msk_1.map
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Additional map: #1

Fileemd_78449_additional_1.map
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Half map: #2

Fileemd_78449_half_map_1.map
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Half map: #1

Fileemd_78449_half_map_2.map
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Sample components

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Entire : respiratory complex V (ATP synthase) F1/central-stalk

EntireName: respiratory complex V (ATP synthase) F1/central-stalk
Components
  • Complex: respiratory complex V (ATP synthase) F1/central-stalk

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Supramolecule #1: respiratory complex V (ATP synthase) F1/central-stalk

SupramoleculeName: respiratory complex V (ATP synthase) F1/central-stalk / type: complex / ID: 1 / Parent: 0
Source (natural)Organism: Leishmania tarentolae (eukaryote)

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation statecell

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Sample preparation

BufferpH: 7.9
GridModel: Quantifoil R1.2/1.3 / Material: COPPER / Mesh: 300 / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 90 sec.
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277 K

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 52.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsC2 aperture diameter: 2.7 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.8 µm / Nominal defocus min: 0.8 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionType: NONE
Startup modelType of model: INSILICO MODEL
In silico model: An ab initio reconstruction generated in cryoSPARC was used as the initial reference.
Final reconstructionResolution.type: BY AUTHOR / Resolution: 4.2 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC (ver. 4.7) / Number images used: 8358
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
FSC plot (resolution estimation)

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