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- EMDB-52025: Growing microtubules -

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Open data


ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-52025
TitleGrowing microtubules
Map datagrowing microtubules
Sample
  • Complex: Microtubule
KeywordsMicrotubule / tubulin / PROTEIN FIBRIL
Biological speciesSus scrofa domesticus (domestic pig)
Methodelectron tomography / cryo EM
AuthorsVolkov VA
Funding support United Kingdom, 1 items
OrganizationGrant numberCountry
Queen Mary University of LondonSBC8VOL2 United Kingdom
CitationJournal: Am J Surg / Year: 1975
Title: Evaluation of the Nissen antireflux procedure by esophageal manometry and twenty-four hour pH monitoring.
Abstract: Fifteen normal volunteers without symptoms of gastroesophageal reflux and sixteen patients with symptoms of gastroesophageal reflux unresponsive to medical management and having endoscopic ...Fifteen normal volunteers without symptoms of gastroesophageal reflux and sixteen patients with symptoms of gastroesophageal reflux unresponsive to medical management and having endoscopic esophagitis had esophageal manometry and twenty-four hour pH monitoring of the distal esophagus. The symptomatic patients underwent a Nissen antireflux procedure and were restudied at four months. After surgery, patients had less reflux, a higher sphincteric pressure, and an equal amount of sphincter within the abdomen as did asymptomatic control subjects.
History
DepositionNov 7, 2024-
Header (metadata) releaseNov 20, 2024-
Map releaseNov 20, 2024-
UpdateJun 11, 2025-
Current statusJun 11, 2025Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_52025.png

Downloads & links

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Map

FileDownload / File: emd_52025.map.gz / Format: CCP4 / Size: 3.3 GB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotationgrowing microtubules
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
7.34 Å/pix.
x 250 pix.
= 1835. Å		7.34 Å/pix.
x 1920 pix.
= 14092.801 Å		7.34 Å/pix.
x 1856 pix.
= 13623.04 Å

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

generated in cubic-lattice coordinate

Voxel sizeX=Y=Z: 7.34 Å
Density

Histogram

Histogram (log scale)
Minimum - Maximum-586.531860000000052 - 462.261349999999993
Average (Standard dev.)1.4669106 (±33.645572999999999)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin-3231-125
Dimensions19201856250
Spacing18561920250
CellA: 13623.04 Å / B: 14092.801 Å / C: 1835.0 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Microtubule

EntireName: Microtubule
Components
  • Complex: Microtubule

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Supramolecule #1: Microtubule

SupramoleculeName: Microtubule / type: complex / ID: 1 / Parent: 0
Source (natural)Organism: Sus scrofa domesticus (domestic pig)

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Experimental details

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Structure determination

Methodcryo EM
Processingelectron tomography
Aggregation statefilament

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Sample preparation

BufferpH: 6.9
VitrificationCryogen name: ETHANE
SectioningOther: NO SECTIONING
Fiducial markerManufacturer: Sigma / Diameter: 5 nm

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Electron microscopy

MicroscopeJEOL 3200FSC
Specialist opticsEnergy filter - Name: In-column Omega Filter
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 100.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 4.0 µm / Nominal defocus min: 4.0 µm

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Image processing

Final reconstructionAlgorithm: BACK PROJECTION / Number images used: 61
CTF correctionType: NONE

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