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Yorodumi- EMDB-31428: Cryo-EM structure of the fibril formed by disaccharide-modified a... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-31428 | |||||||||
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Title | Cryo-EM structure of the fibril formed by disaccharide-modified amyloid-beta(1-42) | |||||||||
Map data | ||||||||||
Sample |
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Function / homology | Function and homology information Golgi-associated vesicle / clathrin-coated pit / heparin binding / growth cone / perikaryon / early endosome / Golgi apparatus / cell surface / endoplasmic reticulum / extracellular region / nucleus Similarity search - Function | |||||||||
Biological species | Homo sapiens (human) | |||||||||
Method | helical reconstruction / cryo EM / Resolution: 3.1 Å | |||||||||
Authors | Xia WC / Sun YP / Liu C | |||||||||
Funding support | 1 items
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Citation | Journal: J.Am.Chem.Soc. / Year: 2021 Title: O-Glycosylation Induces Amyloid-beta To Form New Fibril Polymorphs Vulnerable for Degradation Authors: Liu D / Wei Q / Xia W / He C / Zhang Q / Huang L / Wang X / Sun Y / Ma Y / Zhang X / Wang Y / Shi X / Liu C / Dong S | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_31428.map.gz | 4.4 MB | EMDB map data format | |
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Header (meta data) | emd-31428-v30.xml emd-31428.xml | 9.4 KB 9.4 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_31428_fsc.xml | 7.4 KB | Display | FSC data file |
Images | emd_31428.png | 80.4 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-31428 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-31428 | HTTPS FTP |
-Related structure data
Related structure data | 7f29MC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_31428.map.gz / Format: CCP4 / Size: 34.3 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Voxel size | X=Y=Z: 1.06 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Sample components
-Entire : Cryo-EM structure of the fibril formed by disaccharide-modified a...
Entire | Name: Cryo-EM structure of the fibril formed by disaccharide-modified amyloid-beta(1-42) |
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Components |
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-Supramolecule #1: Cryo-EM structure of the fibril formed by disaccharide-modified a...
Supramolecule | Name: Cryo-EM structure of the fibril formed by disaccharide-modified amyloid-beta(1-42) type: organelle_or_cellular_component / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: Homo sapiens (human) |
-Macromolecule #1: Amyloid-beta A4 protein
Macromolecule | Name: Amyloid-beta A4 protein / type: protein_or_peptide / ID: 1 / Number of copies: 6 / Enantiomer: LEVO |
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Source (natural) | Organism: Homo sapiens (human) |
Molecular weight | Theoretical: 3.90044 KDa |
Sequence | String: HDSGYEVHHQ KLVFFAEDVG SNKGAIIGLM VGGVVIA |
-Macromolecule #3: ACETIC ACID
Macromolecule | Name: ACETIC ACID / type: ligand / ID: 3 / Number of copies: 6 / Formula: ACY |
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Molecular weight | Theoretical: 60.052 Da |
Chemical component information | ChemComp-ACY: |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | helical reconstruction |
Aggregation state | filament |
-Sample preparation
Buffer | pH: 4 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.0 µm |
Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 55.0 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |