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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-1980 | |||||||||
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Title | CryoEM map of ParM filament at 7.2 Angstrom resolution | |||||||||
![]() | This is an volume file of parM filament | |||||||||
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Function / homology | ![]() | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | helical reconstruction / cryo EM / Resolution: 7.2 Å | |||||||||
![]() | Gayathri P / Fujii T / Moller-Jensen J / van den Ent F / Namba K / Lowe J | |||||||||
![]() | ![]() Title: A bipolar spindle of antiparallel ParM filaments drives bacterial plasmid segregation. Authors: P Gayathri / T Fujii / J Møller-Jensen / F van den Ent / K Namba / J Löwe / ![]() Abstract: To ensure their stable inheritance by daughter cells during cell division, bacterial low-copy-number plasmids make simple DNA segregating machines that use an elongating protein filament between ...To ensure their stable inheritance by daughter cells during cell division, bacterial low-copy-number plasmids make simple DNA segregating machines that use an elongating protein filament between sister plasmids. In the ParMRC system of the Escherichia coli R1 plasmid, ParM, an actinlike protein, forms the spindle between ParRC complexes on sister plasmids. By using a combination of structural work and total internal reflection fluorescence microscopy, we show that ParRC bound and could accelerate growth at only one end of polar ParM filaments, mechanistically resembling eukaryotic formins. The architecture of ParM filaments enabled two ParRC-bound filaments to associate in an antiparallel orientation, forming a bipolar spindle. The spindle elongated as a bundle of at least two antiparallel filaments, thereby pushing two plasmid clusters toward the poles. | |||||||||
History |
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Structure visualization
Movie |
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Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 3.6 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 10.6 KB 10.6 KB | Display Display | ![]() |
Images | ![]() | 170.4 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 221.6 KB | Display | ![]() |
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Full document | ![]() | 220.7 KB | Display | |
Data in XML | ![]() | 5.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 4a6jMC ![]() 4a61C ![]() 4a62C M: atomic model generated by this map C: citing same article ( |
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Similar structure data |
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Links
EMDB pages | ![]() ![]() |
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Map
File | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | This is an volume file of parM filament | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.64 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
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Sample components
-Entire : ParM filament
Entire | Name: ParM filament |
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Components |
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-Supramolecule #1000: ParM filament
Supramolecule | Name: ParM filament / type: sample / ID: 1000 / Number unique components: 1 |
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-Macromolecule #1: Plasmid segregation protein parM
Macromolecule | Name: Plasmid segregation protein parM / type: protein_or_peptide / ID: 1 / Name.synonym: parM / Recombinant expression: Yes |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 36 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | InterPro: Plasmid segregation protein ParM/StbA |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | helical reconstruction |
Aggregation state | filament |
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Sample preparation
Buffer | pH: 7.5 Details: 30 mM Tris-HCl, 25 mM KCl, 2 mM MgCl2, 1 mM DTT, pH 7.5 |
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Grid | Details: Quantifoil holey carbon molybdenum grid (R0.6/1.0, Quantifoil Micro Tools GmbH, Jena, Germany) |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 50 K / Instrument: OTHER / Details: Vitrification instrument: Vitrobot / Method: Blot for 3.5 seconds before plunging |
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Electron microscopy
Microscope | JEOL 3200FSC |
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Temperature | Min: 40 K / Max: 60 K / Average: 50 K |
Specialist optics | Energy filter - Name: Omega filter / Energy filter - Lower energy threshold: 0.0 eV / Energy filter - Upper energy threshold: 10.0 eV |
Date | Aug 17, 2009 |
Image recording | Category: CCD / Film or detector model: TVIPS TEMCAM-F415 (4k x 4k) / Digitization - Sampling interval: 15 µm / Number real images: 207 / Average electron dose: 20 e/Å2 / Bits/pixel: 16 |
Electron beam | Acceleration voltage: 200 kV / Electron source: ![]() |
Electron optics | Calibrated magnification: 91463 / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 1.6 mm / Nominal magnification: 50000 |
Sample stage | Specimen holder: top entry stage / Specimen holder model: JEOL |
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Image processing
Final reconstruction | Applied symmetry - Helical parameters - Δz: 23.621 Å Applied symmetry - Helical parameters - Δ&Phi: 164.98 ° Algorithm: OTHER / Resolution.type: BY AUTHOR / Resolution: 7.2 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: SPIDER |
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CTF correction | Details: CTFFIND3 Each particle |