[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
Num. of entries / page
Entry
Article
Sample
Experiment
Processing
Max number of data0 for all data
File format
  • CSV format (Comma-Separated Values, for Excel, etc.)
  • TSV format (Tab Separated Values, for Excel, etc.)
  • JSON format

Yorodumi Search

-
Search result

Showing all 23 items for (Latest entries: updated map)

EMDB-21874:
Structure of human ATG9A, the only transmembrane protein of the core autophagy machinery
Method: single particle / : Guardia CM, Tan X, Lian T, Rana MS, Zhou W, Christenson ET, Lowry AJ, Faraldo-Gomez JD, Bonifacino JS, Jiang J, Banerjee A

EMDB-21876:
Structure of human ATG9A, the only transmembrane protein of the core autophagy machinery
Method: single particle / : Guardia CM, Tan X, Lian T, Rana MS, Zhou W, Christenson ET, Lowry AJ, Faraldo-Gomez JD, Bonifacino JS, Jiang J, Banerjee A

EMDB-21877:
ATG9A stateA monomer map
Method: single particle / : Guardia CM, Tan X, Lian T

EMDB-21878:
ATG9A stateB monomer
Method: single particle / : Guardia CM, Tan X, Lian T

EMDB-22250:
The Heterotetramers of Holin-Antiholin
Method: single particle / : Chang JY, Krieger I, Zhang J

EMDB-20348:
EM structure of human tumor suppressor BRCA2 protein bound to human DSS1 protein and ssDNA without crosslinking
Method: single particle / : Le HP, Ma X, Vaquero J, Brinkmeyer M, Guo F, Heyer WD, Liu J

EMDB-21411:
HIV envelope glycoprotein bound with soluble CD4 (D1-D2) and antibody 17b on AT-2 treated BaL strain virus
Method: subtomogram averaging / : Jun L, Ze L

EMDB-21412:
Ligand-free HIV envelope glycoprotein on AT-2 treated BaL strain virus
Method: subtomogram averaging / : Jun L, Ze L

EMDB-21413:
HIV envelope glycoprotein bound with antibodies 10-1074 and 3BNC117 on AT-2 treated BaL strain virus
Method: subtomogram averaging / : Jun L, Ze L

EMDB-21998:
EM structure of human tumor suppressor bound to human DSS1 protein and ssDNA with crosslinking
Method: single particle / : Le HP, Ma X, Vaquero J, Brinkmeyer M, Guo F, Heyer WD, Liu J

EMDB-10947:
Condensin complex from S.cerevisiae ATP-free apo non-engaged state: focused refinement on arm segment
Method: single particle / : Lee BG, Cawood C, Gutierrez-Escribano P, Nakane T, Merkel F, Hassler M, Haering CH, Aragon L, Lowe J

EMDB-10953:
Condensin complex from S.cerevisiae ATP-free apo bridged state: focused refinement on arm segment
Method: single particle / : Lee BG, Cawood C, Gutierrez-Escribano P, Nakane T, Merkel F, Hassler M, Haering CH, Aragon L, Lowe J

EMDB-10954:
Condensin complex from S.cerevisiae ATP-free apo bridged state: overall map
Method: single particle / : Lee BG, Cawood C, Gutierrez-Escribano P, Nakane T, Merkel F, Hassler M, Haering CH, Aragon L, Lowe J

EMDB-10702:
Post-fusion X-31 Influenza Haemagglutinin at pH 5 (State V)
Method: single particle / : Benton DJ, Rosenthal PB

EMDB-10843:
Mono-ubiquitinated FANCD2 in complex with FANCI
Method: single particle / : Rennie ML, Lemonidis K, Arkinson C, Chaugule VK, Clarke M, Streetley J, Spagnolo L, Walden H

EMDB-10844:
Mono-ubiquitinated FANCD2 in complex with mono-ubiquitinated FANCI and dsDNA
Method: single particle / : Rennie ML, Lemonidis K, Arkinson C, Chaugule VK, Clarke M, Streetley J, Spagnolo L, Walden H

EMDB-11126:
Mouse Muller glial projection
Method: electron tomography / : Meschede IP, Ovenden NC, Seabra MC, Futter CE, Votruba M, Cheetham ME, Burgoyne T

EMDB-10904:
Electron tomography data to study mitochondria within mouse photoreceptor inner segments.
Method: electron tomography / : Meschede IP, Ovenden NC, Seabra MC, Futter CE, Votruba M, Cheetham ME, Burgoyne T

EMDB-22051:
Cryo-EM of peptide-like filament of 1-KMe3
Method: helical / : Wang F, Feng Z, Xu B, Egelman EH

EMDB-10620:
CryoEM structure of human CMG bound to ATPgammaS and DNA - MCM2-7 C-tier
Method: single particle / : Rzechorzek NJ, Pellegrini L

EMDB-20630:
The atomic structure of a human adeno-associated virus capsid isolate (AAVhu69/AAVv66)
Method: single particle / : Hsu HL, Brown A

EMDB-10827:
Negative stain reconstruction of grafix crosslink human condensin I in the presence of ATPyS
Method: single particle / : Cutts EE, Beuron F, Morris E, Vannini A

EMDB-10827:
Negative stain reconstruction of grafix crosslink human condensin I in the presence of ATPyS
Method: single particle / : Cutts EE, Beuron F, Morris E, Vannini A

+
About EMN search

-
News

-
Mar 5, 2020. Novel coronavirus structure data

Novel coronavirus structure data

Related info.:Yorodumi Speices

External links:COVID-19 featured content - PDBj / Molecule of the Month (242):Coronavirus Proteases

-
Jul 5, 2019. Downlodablable text data

Downlodablable text data

  • Some data of EM Navigator services can be downloaded as text file. Software such as Excel can load the data files.
    PageDataFormat
    EMN Searchsearch resultCSV, TSV, or JSON
    EMN statisticsdata tableCSV or TSV

Related info.:EMN Search / EMN Statistics

+
Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)

EMDB accession codes are about to change! (news from PDBe EMDB page)

  • The allocation of 4 digits for EMDB accession codes will soon come to an end. Whilst these codes will remain in use, new EMDB accession codes will include an additional digit and will expand incrementally as the available range of codes is exhausted. The current 4-digit format prefixed with “EMD-” (i.e. EMD-XXXX) will advance to a 5-digit format (i.e. EMD-XXXXX), and so on. It is currently estimated that the 4-digit codes will be depleted around Spring 2019, at which point the 5-digit format will come into force. (see PDBe EMDB page)
  • The EM Navigator/Yorodumi systems omit the EMD- prefix.

Related info.:Q: What is "EMD"? / ID/Accession-code notation in Yorodumi/EM Navigator

External links:EMDB at PDBe / Contact to PDBj

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

PDBj/BINDS workshop in Osaka University

    +
    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

    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 / Jul 5, 2019. Downlodablable text data

    Read more