Movie controller

-
List

    -
    Size

    -
    Control


    Orientation:

    Jmol status

    -
    Console

    -
    Mouse picking

    ID:- Chain:- Residue:- Atom:-
    [English] 日本語
    EMN search
    - 3DEM data search -

    -
    Search query

    Keywords
    Database
    Q: What is the data source of EM Navigator?
    Latest entriesEMDB:
    PDB:
    Q: When the data are updated?
    Author
    Processing method
    Display mode
    Sort by
    Displayentries / page
    Entry
    Article
    Sample
    Experiment
    Processing

    -
    Search result

    Showing 1 - 50 of 58 items for author: x. & yu

    PDB-5gka: cryo-EM structure of human Aichi virus
    Method: single particle / : Zhu L, Wang XX, Ren JS, Tuthill TJ, Fry EE, Rao ZH, Stuart DI
    3D view:

    PDB-5gqh: Cryo-EM structure of PaeCas3-AcrF3 complex
    Method: single particle / : Zhang X, Ma J, Wang Y, Wang J
    3D view:

    PDB-5j8v: Structure of rabbit ryanodine receptor RyR1 open state activated by calcium ion
    Method: single particle / : Wang X, Wei R, Yin C, Sun F
    3D view:

    PDB-3jb8: Insight into Three-dimensional structure of Maize Chlorotic Mottle Virus Revealed by Single Particle Analysis
    Method: single particle / : Wang CY, Zhang QF, Gao YZ, Zhou XP, Ji G, Huang XJ, Hong J, Zhang CX
    3D view:

    PDB-5jnx: The 6.6 A cryo-EM structure of the full-length human NPC1 in complex with the cleaved glycoprotein of Ebola virus
    Method: single particle / : Gong X, Qian HW, Zhou XH, Wu JP, Wan T, Shi Y, Gao F, Zhou Q, Yan N
    3D view:

    PDB-3jct: Cryo-em structure of eukaryotic pre-60S ribosomal subunits
    Method: single particle / : Wu S, Kumcuoglu B, Yan KG, Brown H, Zhang YX, Tan D, Gamalinda M, Yuan Y, Li ZF, Jakovljevic J, Ma CY, Lei JL, Dong MQ, Woolford Jr JL, Gao N
    3D view:

    PDB-3jd8: cryo-EM structure of the full-length human NPC1 at 4.4 angstrom
    Method: single particle / : Gong X, Qian HW, Zhou XH, Wu JP, Zhou Q, Yan N
    3D view:

    PDB-5jb1: Pseudo-atomic structure of Human Papillomavirus Type 59 L1 Virus-like Particle
    Method: single particle / : Li ZH, Yan XD, Yu H, Zheng QB, Gu Y, Li SW
    3D view:

    PDB-3j9d: Atomic structure of a non-enveloped virus reveals pH sensors for a coordinated process of cell entry
    Method: icosahedral / : Zhang X, Patel A, Celma C, Roy P, Zhou ZH
    3D view:

    PDB-3j9e: Atomic structure of a non-enveloped virus reveals pH sensors for a coordinated process of cell entry
    Method: icosahedral / : Zhang X, Patel A, Celma C, Roy P, Zhou ZH
    3D view:

    PDB-3jbt: Atomic structure of the Apaf-1 apoptosome
    Method: single particle / : Zhou M, Li Y, Hu Q, Bai X, Huang W, Yan C, Scheres SHW, Shi Y
    3D view:

    PDB-5fj5: Structure of the in vitro assembled bacteriophage phi6 polymerase complex
    Method: single particle / : Ilca S, Kotecha A, Sun X, Poranen MP, Stuart DI, Huiskonen JT
    3D view:

    PDB-5fj6: Structure of the P2 polymerase inside in vitro assembled bacteriophage phi6 polymerase complex
    Method: single particle / : Ilca S, Kotecha A, Sun X, Poranen MP, Stuart DI, Huiskonen JT
    3D view:

    PDB-5fj7: Structure of the P2 polymerase inside in vitro assembled bacteriophage phi6 polymerase complex, with P1 included
    Method: single particle / : Ilca S, Kotecha A, Sun X, Poranen MP, Stuart DI, Huiskonen JT
    3D view:

    PDB-3jb6: In situ structures of the segmented genome and RNA polymerase complex inside a dsRNA virus
    Method: single particle / : Zhang X, Ding K, Yu XK, Chang W, Sun JC, Zhou ZH
    3D view:

    PDB-3jb7: In situ structures of the segmented genome and RNA polymerase complex inside a dsRNA virus
    Method: single particle / : Zhang X, Ding K, Yu XK, Chang W, Sun JC, Zhou ZH
    3D view:

    PDB-3jay: Atomic model of transcribing cytoplasmic polyhedrosis virus
    Method: icosahedral / : Yu XK, Jiang JS, Sun JC, Zhou ZH
    3D view:

    PDB-3jaz: Atomic model of cytoplasmic polyhedrosis virus with ATP
    Method: icosahedral / : Yu XK, Jiang JS, Sun JC, Zhou ZH
    3D view:

    PDB-3jb0: Atomic model of cytoplasmic polyhedrosis virus with GTP
    Method: icosahedral / : Yu XK, Jiang JS, Sun JC, Zhou ZH
    3D view:

    PDB-3jb1: Atomic model of cytoplasmic polyhedrosis virus with SAM
    Method: icosahedral / : Yu XK, Jiang JS, Sun JC, Zhou ZH
    3D view:

    PDB-3jb2: Atomic model of cytoplasmic polyhedrosis virus with SAM and GTP
    Method: icosahedral / : Yu XK, Jiang JS, Sun JC, Zhou ZH
    3D view:

    PDB-3jb3: Atomic model of cytoplasmic polyhedrosis virus with SAM, GTP and ATP
    Method: icosahedral / : Yu XK, Jiang JS, Sun JC, Zhou ZH
    3D view:

    PDB-5a2t: The Molecular Basis for Flexibility in the Flexible Filamentous Plant Viruses
    Method: helical / : DiMaio F, Chen CC, Yu X, Frenz B, Hsu YH, Lin NS, Egelman EH
    3D view:

    PDB-4uif: Cryo-EM structure of Dengue virus serotype 2 in complex with antigen- binding fragments of human antibody 2D22
    Method: single particle / : Fibriansah G, Ibarra KD, Ng TS, Smith SA, Tan JL, Lim XN, Ooi JSG, Kostyuchenko VA, Wang J, de Silva AM, Harris E, Crowe Junior JE, Lok SM
    3D view:

    PDB-4uih: Cryo-EM structure of Dengue virus serotype 2 strain New Guinea-C complexed with human antibody 2D22 Fab at 37 degree C. The Fab molecules were added to the virus before 37 degree C incubation.
    Method: single particle / : Fibriansah G, Ibarra KD, Ng TS, Smith SA, Tan JL, Lim XN, Ooi JSG, Kostyuchenko VA, Wang J, deSilva AM, Harris E, Crowe JE, Lok SM
    3D view:

    PDB-5a1z: Cryo-EM structure of Dengue virus serotype 2 strain PVP94-07 complexed with human antibody 2D22 Fab at 37 degrees C
    Method: single particle / : Fibriansah G, Ibarra KD, Ng TS, Smith SA, Tan JL, Lim XN, Ooi JSG, Kostyuchenko VA, Wang J, de Silva AM, Harris E, Crowe Jr JE, Lok SM
    3D view:

    PDB-4uis: The cryoEM structure of human gamma-Secretase complex
    Method: single particle / : Sun L, Zhao L, Yang G, Yan C, Zhou R, Zhou X, Xie T, Zhao Y, Wu S, Li X, Shi Y
    3D view:

    PDB-3j9x: A Virus that Infects a Hyperthermophile Encapsidates A-Form DNA
    Method: helical / : DiMaio F, Yu X, Rensen E, Krupovic M, Prangishvili D, Egelman E
    3D view:

    PDB-3j9q: Atomic structures of a bactericidal contractile nanotube in its pre- and post-contraction states
    Method: helical / : Ge P, Scholl D, Leiman PG, Yu X, Miller JF, Zhou ZH
    3D view:

    PDB-3j9r: Atomic structures of a bactericidal contractile nanotube in its pre- and post-contraction states
    Method: helical / : Ge P, Scholl D, Leiman PG, Yu X, Miller JF, Zhou ZH
    3D view:

    PDB-3j9k: Structure of Dark apoptosome in complex with Dronc CARD domain
    Method: single particle / : Pang Y, Bai X, Yan C, Hao Q, Chen Z, Wang J, Scheres SHW, Shi Y
    3D view:

    PDB-3j9l: Structure of Dark apoptosome from Drosophila melanogaster
    Method: single particle / : Pang Y, Bai X, Yan C, Hao Q, Chen Z, Wang J, Scheres SHW, Shi Y
    3D view:

    PDB-3j9b: Electron cryo-microscopy of an RNA polymerase
    Method: single particle / : Chang SH, Sun DP, Liang HH, Wang J, Li J, Guo L, Wang XL, Guan CC, Boruah BM, Yuan LM, Feng F, Yang MR, Wojdyla J, Wang JW, Wang MT, Wang HW, Liu YF
    3D view:

    PDB-3j89: Structural Plasticity of Helical Nanotubes Based on Coiled-Coil Assemblies
    Method: helical / : Egelman EH, Xu C, DiMaio F, Magnotti E, Modlin C, Yu X, Wright E, Baker D, Conticello VP
    3D view:

    PDB-3j9a: Backbone model of the smallest capsid protein (SCP) of Kaposi's sarcoma-associated herpesvirus (KSHV)
    Method: icosahedral / : Dai X, Gong D, Xiao Y, Wu TT, Sun R, Zhou H
    3D view:

    PDB-4d3e: Tetramer of IpaD, modified from 2J0O, fitted into negative stain electron microscopy reconstruction of the wild type tip complex from the type III secretion system of Shigella flexneri
    Method: single particle / : Cheung M, Shen DK, Makino F, Kato T, Roehrich D, Martinez-Argudo I, Walker ML, Murillo I, Liu X, Pain M, Brown J, Frazer G, Mantell J, Mina P, Todd T, Sessions RB, Namba K, Blocker AJ
    3D view:

    PDB-4ckg: Helical reconstruction of ACAP1(BAR-PH domain) decorated membrane tubules by cryo-electron microscopy
    Method: helical / : Pang XY, Fan J, Zhang Y, Zhang K, Gao BQ, Ma J, Li J, Deng YC, Zhou QJ, Hsu V, Sun F
    3D view:

    PDB-4ckh: Helical reconstruction of ACAP1(BAR-PH domain) decorated membrane tubules by cryo-electron microscopy
    Method: helical / : Pang XY, Fan J, Zhang Y, Zhang K, Gao BQ, Ma J, Li J, Deng YC, Zhou QJ, Hsu V, Sun F
    3D view:

    PDB-4upc: Structure of a extracellular domain
    Method: single particle / : Lu P, Bai XC, Ma D, Xie T, Yan C, Sun L, Yang G, Zhao Y, Zhou R, Scheres SHW, Shi Y
    3D view:

    PDB-3j6c: Cryo-EM structure of MAVS CARD filament
    Method: helical / : Xu H, He X, Zheng H, Huang LJ, Hou F, Yu Z, de la Cruz MJ, Borkowski B, Zhang X, Chen ZJ, Jiang QX
    3D view:

    PDB-3j2v: CryoEM structure of HBV core
    Method: icosahedral / : Yu X, Jin L, Jih J, Shih C, Zhou ZH
    3D view:

    PDB-3j1b: Cryo-EM structure of 8-fold symmetric rATcpn-alpha in apo state
    Method: single particle / : Zhang K, Wang L, Liu YX, Wang X, Gao B, Hu ZJ, Ji G, Chan KY, Schulten K, Dong ZY, Sun F
    3D view:

    PDB-3j1c: Cryo-EM structure of 9-fold symmetric rATcpn-alpha in apo state
    Method: single particle / : Zhang K, Wang L, Liu YX, Wang X, Gao B, Hu ZJ, Ji G, Chan KY, Schulten K, Dong ZY, Sun F
    3D view:

    PDB-3j1e: Cryo-EM structure of 9-fold symmetric rATcpn-beta in apo state
    Method: single particle / : Zhang K, Wang L, Liu YX, Wang X, Gao B, Hu ZJ, Ji G, Chan KY, Schulten K, Dong ZY, Sun F
    3D view:

    PDB-3j1f: Cryo-EM structure of 9-fold symmetric rATcpn-beta in ATP-binding state
    Method: single particle / : Zhang K, Wang L, Liu YX, Wang X, Gao B, Hu ZJ, Ji G, Chan KY, Schulten K, Dong ZY, Sun F
    3D view:

    PDB-3j4f: Structure of HIV-1 capsid protein by cryo-EM
    Method: helical / : Zhao G, Perilla JR, Meng X, Schulten K, Zhang P
    3D view:

    PDB-3j34: Structure of HIV-1 Capsid Protein by Cryo-EM
    Method: helical / : Zhao G, Perilla JR, Yufenyuy E, Meng X, Chen B, Ning J, Ahn J, Gronenborn AM, Schulten K, Aiken C, Zhang P
    3D view:

    PDB-3j1p: Atomic model of rabbit hemorrhagic disease virus
    Method: icosahedral / : Wang X, Liu Y, Sun F
    3D view:

    PDB-3j27: CryoEM structure of Dengue virus
    Method: icosahedral / : Zhang X, Ge P, Yu X, Brannan JM, Bi G, Zhang Q, Schein S, Zhou ZH
    3D view:

    PDB-3j2p: CryoEM structure of Dengue virus capsid protein heterotetramer
    Method: icosahedral / : Zhang X, Ge P, Yu X, Brannan JM, Bi G, Zhang Q, Schein S, Zhou ZH
    3D view:

    Pages:

    +
    About EMN search

    -
    News

    -
    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 / EM Navigator (legacy version) / Yorodumi (legacy version)

    -
    Aug 31, 2016. New EM Navigator & Yorodumi

    New EM Navigator & Yorodumi

    • In 15th Sep 2016, the development versions of EM Navigator and Yorodumi will replace the official versions.
    • Current version will continue as 'legacy version' for some time.

    Related info.: Changes in new EM Navigator and Yorodumi / EM Navigator / Yorodumi / EM Navigator (legacy version) / Yorodumi (legacy version)

    +
    Apr 13, 2016. Omokage search got faster

    Omokage search got faster

    • The computation time became ~1/2 compared to the previous version by re-optimization of data accession
    • Enjoy "shape similarity" of biomolecules, more!

    Related info.: Omokage search

    +
    Mar 3, 2016. Presentation (PDF format) at IPR seminar on Feb 19.

    +
    Dec 4, 2015. The article about Omokage search is published online

    The article about Omokage search is published online

    Related info.: Omokage search / gmfit

    Read more

    -
    EMN Search

    3DEM data search

    • Advanced data search for EMDB and EM data in PDB widh various search and display options

    Related info.: EMDB / PDB / EM Navigator / Q: What is the data source of EM Navigator? / Yorodumi Search

    Read more