+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-2213 | |||||||||
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Title | Organization of the Influenza Virus Replication Machinery | |||||||||
Map data | Reconstruction of Influenza Virus polymerase | |||||||||
Sample |
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Keywords | Influenza / RNP / Polymerase | |||||||||
Biological species | Influenza A virus (A/Puerto Rico/8/1934(H1N1)) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 13.0 Å | |||||||||
Authors | Moeller A / Kirchdoerfer RN / Potter CS / Carragher B / Wilson IA | |||||||||
Citation | Journal: Science / Year: 2012 Title: Organization of the influenza virus replication machinery. Authors: Arne Moeller / Robert N Kirchdoerfer / Clinton S Potter / Bridget Carragher / Ian A Wilson / Abstract: Influenza virus ribonucleoprotein complexes (RNPs) are central to the viral life cycle and in adaptation to new host species. RNPs are composed of the viral genome, viral polymerase, and many copies ...Influenza virus ribonucleoprotein complexes (RNPs) are central to the viral life cycle and in adaptation to new host species. RNPs are composed of the viral genome, viral polymerase, and many copies of the viral nucleoprotein. In vitro cell expression of all RNP protein components with four of the eight influenza virus gene segments enabled structural determination of native influenza virus RNPs by means of cryogenic electron microscopy (cryo-EM). The cryo-EM structure reveals the architecture and organization of the native RNP, defining the attributes of its largely helical structure and how polymerase interacts with nucleoprotein and the viral genome. Observations of branched-RNP structures in negative-stain electron microscopy and their putative identification as replication intermediates suggest a mechanism for viral replication by a second polymerase on the RNP template. | |||||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | EM map: SurfViewMolmilJmol/JSmol |
Supplemental images |
-Downloads & links
-EMDB archive
Map data | emd_2213.map.gz | 7.4 MB | EMDB map data format | |
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Header (meta data) | emd-2213-v30.xml emd-2213.xml | 7.8 KB 7.8 KB | Display Display | EMDB header |
Images | emd_2213.tif | 185.9 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-2213 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-2213 | HTTPS FTP |
-Validation report
Summary document | emd_2213_validation.pdf.gz | 221.1 KB | Display | EMDB validaton report |
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Full document | emd_2213_full_validation.pdf.gz | 220.3 KB | Display | |
Data in XML | emd_2213_validation.xml.gz | 5.1 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-2213 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-2213 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_2213.map.gz / Format: CCP4 / Size: 7.8 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | Reconstruction of Influenza Virus polymerase | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 2.18 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Sample components
-Entire : influenza virus polymerase
Entire | Name: influenza virus polymerase |
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Components |
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-Supramolecule #1000: influenza virus polymerase
Supramolecule | Name: influenza virus polymerase / type: sample / ID: 1000 / Number unique components: 3 |
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-Macromolecule #1: influenza virus polymerase
Macromolecule | Name: influenza virus polymerase / type: protein_or_peptide / ID: 1 / Recombinant expression: Yes |
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Source (natural) | Organism: Influenza A virus (A/Puerto Rico/8/1934(H1N1)) |
Recombinant expression | Organism: Homo sapiens (human) |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Vitrification | Cryogen name: ETHANE / Chamber humidity: 85 % / Instrument: HOMEMADE PLUNGER |
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-Electron microscopy
Microscope | FEI TECNAI 20 |
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Date | Mar 11, 2011 |
Image recording | Category: CCD / Film or detector model: GENERIC CCD / Number real images: 1878 / Average electron dose: 20 e/Å2 |
Electron beam | Acceleration voltage: 120 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal magnification: 100000 |
Sample stage | Specimen holder model: GATAN LIQUID NITROGEN |
-Image processing
CTF correction | Details: wholeimage |
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Final reconstruction | Applied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 13.0 Å / Resolution method: FSC 0.5 CUT-OFF / Software - Name: XMIPP, IMAGIC, SPIDER, APPION, CTFFIND3 / Number images used: 16958 |