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EM Navigator
- 3D electron microscopy data navigator -

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Browse 3DEM data

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Recently released data

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Recent 3DEM papers

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Cryo-EM structure of the active, G-protein complexed, human CGRP receptor.

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Sub-2 Å Ewald curvature corrected structure of an AAV2 capsid variant.

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Differential processing of HIV envelope glycans on the virus and soluble recombinant trimer.

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Cryo-EM of full-length α-synuclein reveals fibril polymorphs with a common structural kernel.

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Structure of the human plasma membrane Ca-ATPase 1 in complex with its obligatory subunit neuroplastin.

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About EM Navigator

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News

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Feb 20, 2018. PDBj/BINDS workshop in Osaka University

PDBj/BINDS workshop in Osaka University

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    Oct 4, 2017. Three pioneers of this field were awarded Nobel Prize in Chemistry 2017

    Three pioneers of this field were awarded Nobel Prize in Chemistry 2017

    • Jacques Dubochet (University of Lausanne, Switzerland) is a pioneer of ice-embedding method of EM specimen (as known as cryo-EM), Most of 3DEM structures in EMDB and PDB are obtained using his method.
    • Joachim Frank (Columbia University, New York, USA) is a pioneer of single particle reconstruction, which is the most used reconstruction method for 3DEM structures in EMDB and EM entries in PDB. And also, he is a develper of Spider, which is one of the most famous software in this field, and is used for some EM Navigor data (e.g. map projection/slice images).
    • Richard Henderson (MRC Laboratory of Molecular Biology, Cambridge, UK) was determined the first biomolecule structure by EM. The first EM entry in PDB, PDB-1brd is determinedby him.

    External links: The 2017 Nobel Prize in Chemistry - Press Release

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    Jul 12, 2017. Major update of PDB

    Major update of PDB

    • wwPDB released updated PDB data conforming to the new PDBx/mmCIF dictionary. This is a major update changing the version number from 4 to 5, and with Remediation, in which all the entries are updated. See below links for details.
    • In this update, many items about electron microscopy experimental information are reorganized (e.g. em_software). Now, EM Navigator and Yorodumi are based on the updated data.

    External links: wwPDB Remediation / Enriched Model Files Conforming to OneDep Data Standards Now Available in the PDB FTP Archive

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    Jun 16, 2017. Omokage search with filter

    Omokage search with filter

    • Result of Omokage search can be filtered by keywords and the database types

    Related info.: Omokage search

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    Sep 15, 2016. EM Navigator & Yorodumi renewed

    EM Navigator & Yorodumi renewed

    • New versions of EM Navigator and Yorodumi started

    Related info.: Changes in new EM Navigator and Yorodumi

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    EM Navigator

    3D electron microscopy data browser

    • Browser for 3D electron microscopy (3D-EM) data of biological molecules and assemblies.

    Related info.: EMDB / PDB / PDBj / Q: What is the data source of EM Navigator? / EMN Search / EMN Papers / EMN Gallery / EMN Statistics / Changes in new EM Navigator and Yorodumi

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