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Yorodumi- EMDB-8884: RCT reconstruction of HCMV Pentamer with receptor and 3G16 Fab fr... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-8884 | |||||||||
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Title | RCT reconstruction of HCMV Pentamer with receptor and 3G16 Fab fragment. | |||||||||
Map data | RCT reconstruction of CMV Pentamer bound to Receptor and 3G16 Fab fragment. | |||||||||
Sample |
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Biological species | Human cytomegalovirus | |||||||||
Method | single particle reconstruction / negative staining / Resolution: 25.0 Å | |||||||||
Authors | Ciferri C / Arthur CP / Dosey AM | |||||||||
Citation | Journal: Cell / Year: 2018 Title: An Unbiased Screen for Human Cytomegalovirus Identifies Neuropilin-2 as a Central Viral Receptor. Authors: Nadia Martinez-Martin / Jessica Marcandalli / Christine S Huang / Christopher P Arthur / Michela Perotti / Mathilde Foglierini / Hoangdung Ho / Annie M Dosey / Stephanie Shriver / Jian ...Authors: Nadia Martinez-Martin / Jessica Marcandalli / Christine S Huang / Christopher P Arthur / Michela Perotti / Mathilde Foglierini / Hoangdung Ho / Annie M Dosey / Stephanie Shriver / Jian Payandeh / Alexander Leitner / Antonio Lanzavecchia / Laurent Perez / Claudio Ciferri / Abstract: Characterizing cell surface receptors mediating viral infection is critical for understanding viral tropism and developing antiviral therapies. Nevertheless, due to challenges associated with ...Characterizing cell surface receptors mediating viral infection is critical for understanding viral tropism and developing antiviral therapies. Nevertheless, due to challenges associated with detecting protein interactions on the cell surface, the host receptors of many human pathogens remain unknown. Here, we build a library consisting of most single transmembrane human receptors and implement a workflow for unbiased and high-sensitivity detection of receptor-ligand interactions. We apply this technology to elucidate the long-sought receptor of human cytomegalovirus (HCMV), the leading viral cause of congenital birth defects. We identify neuropilin-2 (Nrp2) as the receptor for HCMV-pentamer infection in epithelial/endothelial cells and uncover additional HCMV interactors. Using a combination of biochemistry, cell-based assays, and electron microscopy, we characterize the pentamer-Nrp2 interaction and determine the architecture of the pentamer-Nrp2 complex. This work represents an important approach to the study of host-pathogen interactions and provides a framework for understanding HCMV infection, neutralization, and the development of novel anti-HCMV therapies. | |||||||||
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_8884.map.gz | 4.6 MB | EMDB map data format | |
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Header (meta data) | emd-8884-v30.xml emd-8884.xml | 7 KB 7 KB | Display Display | EMDB header |
Images | emd_8884.png | 125.1 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-8884 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-8884 | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_8884.map.gz / Format: CCP4 / Size: 5.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | RCT reconstruction of CMV Pentamer bound to Receptor and 3G16 Fab fragment. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 5.4 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 : HCMV Pentamer with receptor and 3G16 Fab fragment bound.
Entire | Name: HCMV Pentamer with receptor and 3G16 Fab fragment bound. |
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Components |
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-Supramolecule #1: HCMV Pentamer with receptor and 3G16 Fab fragment bound.
Supramolecule | Name: HCMV Pentamer with receptor and 3G16 Fab fragment bound. type: complex / ID: 1 / Parent: 0 |
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Source (natural) | Organism: Human cytomegalovirus |
Recombinant expression | Organism: Homo sapiens (human) / Recombinant cell: Hek293 |
-Experimental details
-Structure determination
Method | negative staining |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.5 |
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Staining | Type: NEGATIVE / Material: Uranyl Acetate |
-Electron microscopy
Microscope | FEI TECNAI SPIRIT |
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Electron beam | Acceleration voltage: 120 kV / Electron source: LAB6 |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy |
Image recording | Film or detector model: GATAN ULTRASCAN 1000 (2k x 2k) / Average electron dose: 30.0 e/Å2 |
Experimental equipment | Model: Tecnai Spirit / Image courtesy: FEI Company |
-Image processing
Initial angle assignment | Type: NOT APPLICABLE |
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Final angle assignment | Type: NOT APPLICABLE |
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 25.0 Å / Resolution method: OTHER / Number images used: 570 |