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Yorodumi- EMDB-50022: Influenza virus neuraminidase N1 NC13 ectodomain with a tetrabrac... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-50022 | |||||||||
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Title | Influenza virus neuraminidase N1 NC13 ectodomain with a tetrabrachio-domain stalk | |||||||||
Map data | ||||||||||
Sample |
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Keywords | Neuraminidase / Tetrabrachion / VIRAL PROTEIN | |||||||||
Function / homology | Function and homology information exo-alpha-(2->3)-sialidase activity / exo-alpha-(2->6)-sialidase activity / exo-alpha-(2->8)-sialidase activity / exo-alpha-sialidase / viral budding from plasma membrane / carbohydrate metabolic process / host cell plasma membrane / virion membrane / membrane / metal ion binding Similarity search - Function | |||||||||
Biological species | Influenza A virus (A/North Carolina/07/2013(H1N1)) / Influenza A virus | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.0 Å | |||||||||
Authors | Roelofs MC / Zeev-Ben-Mordehai T | |||||||||
Funding support | 1 items
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Citation | Journal: To be published Title: Nanoparticle display of neuraminidase elicits enhanced antibody responses and protection against influenza A virus challenge in mice Authors: Pascha MN / Ballegeer M / Roelofs MC / Meuris L / Albulescu IC / van Kuppeveld FJM / Hurdiss DL / Bosch BJ / Zeev-Ben-Mordehai T / Saelens X / de Haan CAM | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_50022.map.gz | 111.5 MB | EMDB map data format | |
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Header (meta data) | emd-50022-v30.xml emd-50022.xml | 13.4 KB 13.4 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_50022_fsc.xml | 12.7 KB | Display | FSC data file |
Images | emd_50022.png | 116.3 KB | ||
Filedesc metadata | emd-50022.cif.gz | 5.4 KB | ||
Others | emd_50022_half_map_1.map.gz emd_50022_half_map_2.map.gz | 200.1 MB 200.1 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-50022 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-50022 | HTTPS FTP |
-Related structure data
Related structure data | 9ewqMC 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_50022.map.gz / Format: CCP4 / Size: 216 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Voxel size | X=Y=Z: 1.041 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #1
File | emd_50022_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_50022_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Influenza N1 NC13 with part of stalk replaced by tetrabrachion te...
Entire | Name: Influenza N1 NC13 with part of stalk replaced by tetrabrachion tetramerization domain |
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Components |
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-Supramolecule #1: Influenza N1 NC13 with part of stalk replaced by tetrabrachion te...
Supramolecule | Name: Influenza N1 NC13 with part of stalk replaced by tetrabrachion tetramerization domain type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: Influenza A virus (A/North Carolina/07/2013(H1N1)) |
-Macromolecule #1: Neuraminidase
Macromolecule | Name: Neuraminidase / type: protein_or_peptide / ID: 1 / Number of copies: 4 / Enantiomer: LEVO / EC number: exo-alpha-sialidase |
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Source (natural) | Organism: Influenza A virus |
Molecular weight | Theoretical: 42.385258 KDa |
Recombinant expression | Organism: Homo sapiens (human) |
Sequence | String: VKLAGNSSLC PVSGWAIYSK DNSVRIGSKG DVFVIREPFI SCSPLECRTF FLTQGALLND KHSNGTIKDR SPYRTLMSCP IGEVPSPYN SRFESVAWSA SACHDGINWL TIGISGPDSG AVAVLKYNGI ITDTIKSWRN NILRTQESEC ACVNGSCFTI M TDGPSDGQ ...String: VKLAGNSSLC PVSGWAIYSK DNSVRIGSKG DVFVIREPFI SCSPLECRTF FLTQGALLND KHSNGTIKDR SPYRTLMSCP IGEVPSPYN SRFESVAWSA SACHDGINWL TIGISGPDSG AVAVLKYNGI ITDTIKSWRN NILRTQESEC ACVNGSCFTI M TDGPSDGQ ASYKIFRIEK GKIVKSVEMN APNYHYEECS CYPDSSEITC VCRDNWHGSN RPWVSFNQNL EYQIGYICSG VF GDNPRPN DKTGSCGPVS SNGANGVKGF SFKYGNGVWI GRTKSISSRK GFEMIWDPNG WTGTDNNFSI KQDIVGINEW SGY SGSFVQ HPELTGLDCI RPCFWVELIR GRPEENTIWT SGSSISFCGV NSDTVGWSWP DGAELPFTI UniProtKB: Neuraminidase |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE-PROPANE |
-Electron microscopy
Microscope | FEI TALOS ARCTICA |
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Electron beam | Acceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Cs: 2.7 mm / Nominal defocus max: 3.0 µm / Nominal defocus min: 1.0 µm |
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Average exposure time: 0.2 sec. / Average electron dose: 48.1 e/Å2 |
Experimental equipment | Model: Talos Arctica / Image courtesy: FEI Company |