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- EMDB-20604: BRCA1-BARD1 p53 complex -

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Open data


ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-20604
TitleBRCA1-BARD1 p53 complex
Map dataBRCA1-BARD1 p53 complex
Sample
  • Complex: BRCA1-BARD1 p53 monomer
Biological speciesHomo sapiens (human)
Methodsingle particle reconstruction / cryo EM / Resolution: 10.8 Å
AuthorsKelly DF / Varano AC
Funding support United States, 3 items
OrganizationGrant numberCountry
National Institutes of Health/National Cancer InstituteR01CA193578 United States
National Institutes of Health/National Cancer InstituteR01CA227261 United States
National Institutes of Health/National Cancer InstituteR01CA219700 United States
CitationJournal: Microsc Microanal / Year: 2018
Title: Cryo-EM Reveals a Unique BRCA1 Complex in Metastasis
Authors: Varano AC / Alden N / Dearnaley W / Kelly DF
History
DepositionAug 14, 2019-
Header (metadata) releaseSep 18, 2019-
Map releaseAug 19, 2020-
UpdateSep 1, 2021-
Current statusSep 1, 2021Processing site: RCSB / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.193
  • Imaged by UCSF Chimera
  • Download
  • Surface view colored by radius
  • Surface level: 0.193
  • Imaged by UCSF Chimera
  • Download
Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_20604.png

Downloads & links

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Map

FileDownload / File: emd_20604.map.gz / Format: CCP4 / Size: 3.8 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationBRCA1-BARD1 p53 complex
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
3.5 Å/pix.
x 100 pix.
= 350. Å		3.5 Å/pix.
x 100 pix.
= 350. Å		3.5 Å/pix.
x 100 pix.
= 350. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 3.5 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.193 / Movie #1: 0.193
Minimum - Maximum-0.31357887 - 0.4677379
Average (Standard dev.)0.0058770706 (±0.052981876)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions100100100
Spacing100100100
CellA=B=C: 350.0 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z3.53.53.5
M x/y/z100100100
origin x/y/z0.0000.0000.000
length x/y/z350.000350.000350.000
α/β/γ90.00090.00090.000
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS100100100
D min/max/mean-0.3140.4680.006

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Supplemental data

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Sample components

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Entire : BRCA1-BARD1 p53 monomer

EntireName: BRCA1-BARD1 p53 monomer
Components
  • Complex: BRCA1-BARD1 p53 monomer

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Supramolecule #1: BRCA1-BARD1 p53 monomer

SupramoleculeName: BRCA1-BARD1 p53 monomer / type: complex / ID: 1 / Parent: 0
Source (natural)Organism: Homo sapiens (human)

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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

BufferpH: 7.2
GridDetails: unspecified
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TECNAI SPIRIT
Image recordingFilm or detector model: FEI EAGLE (2k x 2k) / Average electron dose: 5.0 e/Å2
Electron beamAcceleration voltage: 120 kV / Electron source: LAB6
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD
Experimental equipment
Model: Tecnai Spirit / Image courtesy: FEI Company

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Image processing

Particle selectionNumber selected: 1615
Startup modelType of model: EMDB MAP
EMDB ID:

8834
EMDB Unreleased entry

Final reconstructionResolution.type: BY AUTHOR / Resolution: 10.8 Å / Resolution method: FSC 0.5 CUT-OFF / Number images used: 1615
Initial angle assignmentType: OTHER / Details: RELION software package
Final angle assignmentType: OTHER / Details: RELION software package

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