+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-11966 | |||||||||
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Title | Puumala virus-like particle glycoprotein lattice. | |||||||||
Map data | A reconstruction of a Puumala virus-like particle glycoprotein spike. | |||||||||
Sample | Puumala virus - Sotkamo != Puumala orthohantavirus Puumala virus - Sotkamo
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Function / homology | Function and homology information : / symbiont-mediated suppression of host TRAF-mediated signal transduction / host cell Golgi membrane / host cell mitochondrion / host cell surface / host cell endoplasmic reticulum membrane / virion membrane / signal transduction / membrane / metal ion binding Similarity search - Function | |||||||||
Biological species | Puumala orthohantavirus | |||||||||
Method | subtomogram averaging / cryo EM / Resolution: 13.9 Å | |||||||||
Authors | Rissanen I / Stass R / Huiskonen JT / Bowden TA | |||||||||
Funding support | United Kingdom, 1 items
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Citation | Journal: Elife / Year: 2020 Title: Molecular rationale for antibody-mediated targeting of the hantavirus fusion glycoprotein. Authors: Ilona Rissanen / Robert Stass / Stefanie A Krumm / Jeffrey Seow / Ruben Jg Hulswit / Guido C Paesen / Jussi Hepojoki / Olli Vapalahti / Åke Lundkvist / Olivier Reynard / Viktor Volchkov / ...Authors: Ilona Rissanen / Robert Stass / Stefanie A Krumm / Jeffrey Seow / Ruben Jg Hulswit / Guido C Paesen / Jussi Hepojoki / Olli Vapalahti / Åke Lundkvist / Olivier Reynard / Viktor Volchkov / Katie J Doores / Juha T Huiskonen / Thomas A Bowden / Abstract: The intricate lattice of Gn and Gc glycoprotein spike complexes on the hantavirus envelope facilitates host-cell entry and is the primary target of the neutralizing antibody-mediated immune response. ...The intricate lattice of Gn and Gc glycoprotein spike complexes on the hantavirus envelope facilitates host-cell entry and is the primary target of the neutralizing antibody-mediated immune response. Through study of a neutralizing monoclonal antibody termed mAb P-4G2, which neutralizes the zoonotic pathogen Puumala virus (PUUV), we provide a molecular-level basis for antibody-mediated targeting of the hantaviral glycoprotein lattice. Crystallographic analysis demonstrates that P-4G2 binds to a multi-domain site on PUUV Gc and may preclude fusogenic rearrangements of the glycoprotein that are required for host-cell entry. Furthermore, cryo-electron microscopy of PUUV-like particles in the presence of P-4G2 reveals a lattice-independent configuration of the Gc, demonstrating that P-4G2 perturbs the (Gn-Gc) lattice. This work provides a structure-based blueprint for rationalizing antibody-mediated targeting of hantaviruses. | |||||||||
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_11966.map.gz | 6.3 MB | EMDB map data format | |
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Header (meta data) | emd-11966-v30.xml emd-11966.xml | 16.2 KB 16.2 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_11966_fsc.xml | 4.9 KB | Display | FSC data file |
Images | emd_11966.png | 103.8 KB | ||
Masks | emd_11966_msk_1.map | 6.9 MB | Mask map | |
Others | emd_11966_half_map_1.map.gz emd_11966_half_map_2.map.gz | 5.6 MB 5.5 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-11966 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-11966 | HTTPS FTP |
-Related structure data
Related structure data | 7b0aMC 6z06C 7b09C M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_11966.map.gz / Format: CCP4 / Size: 6.9 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | A reconstruction of a Puumala virus-like particle glycoprotein spike. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 3.52 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Mask #1
File | emd_11966_msk_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: Half map (even) used to estimate resolution by FSC.
File | emd_11966_half_map_1.map | ||||||||||||
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Annotation | Half map (even) used to estimate resolution by FSC. | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half map (odd) used to estimate resolution by FSC.
File | emd_11966_half_map_2.map | ||||||||||||
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Annotation | Half map (odd) used to estimate resolution by FSC. | ||||||||||||
Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Puumala virus - Sotkamo
Entire | Name: Puumala virus - Sotkamo |
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Components |
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-Supramolecule #1: Puumala orthohantavirus
Supramolecule | Name: Puumala orthohantavirus / type: virus / ID: 1 / Parent: 0 / Macromolecule list: #1 / NCBI-ID: 1980486 / Sci species name: Puumala orthohantavirus / Virus type: VIRUS-LIKE PARTICLE / Virus isolate: SPECIES / Virus enveloped: Yes / Virus empty: Yes |
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Host system | Organism: Homo sapiens (human) |
-Macromolecule #1: Envelope polyprotein
Macromolecule | Name: Envelope polyprotein / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: Puumala orthohantavirus |
Molecular weight | Theoretical: 49.827898 KDa |
Recombinant expression | Organism: Homo sapiens (human) |
Sequence | String: GPGETQNLNS GWTDTAHGSG IIPMRTDLEL DFSLPSSASY TYRRQLQNPA NEQEKIPFHL QISKQVIHAE IQHLGHWMDG TFNLKTAFH CYGSCEKYAY PWQTAGCFIE KDYEYESGWG CNPPDCPGVG TGCTACGVYL DKLKSVGKAF KIVSLRYTRK A CIQLGTEQ ...String: GPGETQNLNS GWTDTAHGSG IIPMRTDLEL DFSLPSSASY TYRRQLQNPA NEQEKIPFHL QISKQVIHAE IQHLGHWMDG TFNLKTAFH CYGSCEKYAY PWQTAGCFIE KDYEYESGWG CNPPDCPGVG TGCTACGVYL DKLKSVGKAF KIVSLRYTRK A CIQLGTEQ TCKSVDSNDC LVTTSVKVCL IGTVSKFQPS DTLLFLGPLE QGGLIFKQWC TTTCQFGDPG DIMSTPVGMK CP ELNGSFR KKCAFATTPV CQFDGNTLSG YKRMIATKDS FQSFNVTEPH ISASSLEWID PDSSLRDHIN VIVGRDLSFQ DLS ETPCQV DLATTSIDGA WGSGVGFNLV CSVSLTECST FLTSIKACDS AMCYGSTTAN LLRGQNTVHI VGKGGHSGSK FMCC HDTKC SSTGLVAAAP HLDRVTGYNQ ADSDKIFDDG APECGISCWF TKSGEGTETS QVAPA |
-Macromolecule #2: Envelope polyprotein
Macromolecule | Name: Envelope polyprotein / type: protein_or_peptide / ID: 2 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: Puumala orthohantavirus |
Molecular weight | Theoretical: 40.061566 KDa |
Recombinant expression | Organism: Homo sapiens (human) |
Sequence | String: ETGELKIECP HTIGLGQGLV IGSVELPPVP LTQVESLKLE SSCNFDLHTS TSSQQPFTKW TWEMKSDLAE NTQASSTSFQ TKSSEINLR GLCLVPPLVI ETAARTRKTI ACFDLSCNQT ACQPTVFLIG PIQTCITTKS CLLGLGDQRI QVNYEKTYCV S GQLVEGVC ...String: ETGELKIECP HTIGLGQGLV IGSVELPPVP LTQVESLKLE SSCNFDLHTS TSSQQPFTKW TWEMKSDLAE NTQASSTSFQ TKSSEINLR GLCLVPPLVI ETAARTRKTI ACFDLSCNQT ACQPTVFLIG PIQTCITTKS CLLGLGDQRI QVNYEKTYCV S GQLVEGVC FNPVHTMALS QPSHTYDIVT VMVRCFLIAK KVSTGDSMKL EKSFETLVQK TSCTGNGFQG YYICLVGSSS EP LYIPTLD DYRSAEVLSR MAFAPHGEDH DVEKNAISAM RIIGKVTGKA PSTESSDTIQ GVAFSGNPLY TSTGVLTAKD DPV YIWAPG IIMEGNHSVC DKKTLPLTWT GFIPLPGEIE KTGTKHHHHH H |
-Macromolecule #5: 2-acetamido-2-deoxy-beta-D-glucopyranose
Macromolecule | Name: 2-acetamido-2-deoxy-beta-D-glucopyranose / type: ligand / ID: 5 / Number of copies: 2 / Formula: NAG |
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Molecular weight | Theoretical: 221.208 Da |
Chemical component information | ChemComp-NAG: |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | subtomogram averaging |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.5 / Details: PBS |
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Vitrification | Cryogen name: ETHANE-PROPANE |
-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 |
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 4.5 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |