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- EMDB-51297: Native monomeric Myeloperoxidase bound to nucleosome core particle -
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Open data
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Basic information
Entry | ![]() | |||||||||
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Title | Native monomeric Myeloperoxidase bound to nucleosome core particle | |||||||||
![]() | Main map, sharpened by Phenix | |||||||||
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![]() | Histone / acidic patch / innate immunity / NETs / IMMUNE SYSTEM | |||||||||
Function / homology | ![]() myeloperoxidase / hypochlorous acid biosynthetic process / Events associated with phagocytolytic activity of PMN cells / phagocytic vesicle lumen / response to gold nanoparticle / response to yeast / respiratory burst involved in defense response / low-density lipoprotein particle remodeling / azurophil granule / response to food ...myeloperoxidase / hypochlorous acid biosynthetic process / Events associated with phagocytolytic activity of PMN cells / phagocytic vesicle lumen / response to gold nanoparticle / response to yeast / respiratory burst involved in defense response / low-density lipoprotein particle remodeling / azurophil granule / response to food / response to mechanical stimulus / defense response to fungus / removal of superoxide radicals / secretory granule / hydrogen peroxide catabolic process / peroxidase activity / defense response / structural constituent of chromatin / azurophil granule lumen / nucleosome / heterochromatin formation / nucleosome assembly / heparin binding / response to lipopolysaccharide / response to oxidative stress / lysosome / defense response to bacterium / protein heterodimerization activity / intracellular membrane-bounded organelle / heme binding / Neutrophil degranulation / chromatin binding / negative regulation of apoptotic process / extracellular space / DNA binding / extracellular exosome / extracellular region / nucleoplasm / metal ion binding / nucleus Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.89 Å | |||||||||
![]() | Raisch T / Burn GL / Tacke S / Winkler M / Prumbaum D / Thee S / Zychlinsky A / Raunser S | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Myeloperoxidase transforms chromatin into Neutrophil Extracellular Traps Authors: Burn GL / Raisch T / Tacke S / Winkler M / Prumbaum D / Thee S / Raunser S / Zychlinsky A | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 219 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 26 KB 26 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 13.2 KB | Display | ![]() |
Images | ![]() | 196.1 KB | ||
Filedesc metadata | ![]() | 7.1 KB | ||
Others | ![]() ![]() ![]() | 121.5 MB 226.7 MB 226.7 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 939.7 KB | Display | ![]() |
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Full document | ![]() | 939.3 KB | Display | |
Data in XML | ![]() | 22.5 KB | Display | |
Data in CIF | ![]() | 29.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 9gepMC ![]() 9genC ![]() 9geoC ![]() 9geqC ![]() 9gerC ![]() 9ihdC ![]() 9iheC ![]() 9ihfC M: atomic model generated by this map C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
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Annotation | Main map, sharpened by Phenix | ||||||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.68 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Additional map: Unsharpened map
File | emd_51297_additional_1.map | ||||||||||||
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Annotation | Unsharpened map | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half Map A
File | emd_51297_half_map_1.map | ||||||||||||
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Annotation | Half Map A | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half Map B
File | emd_51297_half_map_2.map | ||||||||||||
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Annotation | Half Map B | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
+Entire : Complex of myeloperoxidase and nucleosome core particle
+Supramolecule #1: Complex of myeloperoxidase and nucleosome core particle
+Macromolecule #1: Histone H3.2
+Macromolecule #2: Histone H4
+Macromolecule #3: Histone H2A type 1
+Macromolecule #4: Histone H2B 1.1
+Macromolecule #7: Myeloperoxidase light chain
+Macromolecule #8: Myeloperoxidase light chain
+Macromolecule #5: Widom-601 DNA (145-MER)
+Macromolecule #6: Widom-601 DNA (145-MER)
+Macromolecule #9: 2-acetamido-2-deoxy-beta-D-glucopyranose
+Macromolecule #10: PROTOPORPHYRIN IX CONTAINING FE
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 53.3 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: OTHER / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.4 µm / Nominal defocus min: 1.2 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |