[English] 日本語
- 3DEM data search -

-
Search query


Keywords
Database /
Q: What are the data sources of EM Navigator?
Data entries / weeks ago
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 1 - 50 of 191 items for (author: shimizu & y)

EMDB-64921:
Cryo-EM structure of human PLD3 apo form
Method: single particle / : Hirano Y, Ezaki W, Ohto U, Shimizu T

EMDB-64922:
Cryo-EM structure of human PLD3 bound to ssDNA (poly(T))
Method: single particle / : Hirano Y, Ezaki W, Ohto U, Shimizu T

EMDB-64923:
Cryo-EM structure of PLD3 bound to ssDNA (poly(A))
Method: single particle / : Hirano Y, Ezaki W, Ohto U, Shimizu T

EMDB-64924:
Cryo-EM structure of human PLD4 apo form
Method: single particle / : Hirano Y, Ezaki W, Ohto U, Shimizu T

EMDB-64925:
Cryo-EM structure of human PLD4 bound to ssDNA (poly(T))
Method: single particle / : Hirano Y, Ezaki W, Ohto U, Shimizu T

PDB-9vbg:
Cryo-EM structure of human PLD3 apo form
Method: single particle / : Hirano Y, Ezaki W, Ohto U, Shimizu T

PDB-9vbh:
Cryo-EM structure of human PLD3 bound to ssDNA (poly(T))
Method: single particle / : Hirano Y, Ezaki W, Ohto U, Shimizu T

PDB-9vbi:
Cryo-EM structure of PLD3 bound to ssDNA (poly(A))
Method: single particle / : Hirano Y, Ezaki W, Ohto U, Shimizu T

PDB-9vbj:
Cryo-EM structure of human PLD4 apo form
Method: single particle / : Hirano Y, Ezaki W, Ohto U, Shimizu T

PDB-9vbk:
Cryo-EM structure of human PLD4 bound to ssDNA (poly(T))
Method: single particle / : Hirano Y, Ezaki W, Ohto U, Shimizu T

EMDB-62218:
Cryo-EM structure of LGR4
Method: single particle / : Peng Y, Fujimura A, Asami J, Zhang Z, Shimizu T, Ohto U

EMDB-62219:
Cryo-EM structure of LGR4-RSPO2 complex
Method: single particle / : Peng Y, Fujimura A, Asami J, Zhang Z, Shimizu T, Ohto U

EMDB-62220:
Cryo-EM structure of LGR4-RSPO2-ZNRF3 complex (1:1:2)
Method: single particle / : Peng Y, Fujimura A, Asami J, Zhang Z, Shimizu T, Ohto U

EMDB-62221:
Cryo-EM structure of LGR4-RSPO2-ZNRF3 complex (2:2:2)
Method: single particle / : Peng Y, Fujimura A, Asami J, Zhang Z, Shimizu T, Ohto U

PDB-9kb6:
Cryo-EM structure of LGR4
Method: single particle / : Peng Y, Fujimura A, Asami J, Zhang Z, Shimizu T, Ohto U

PDB-9kb7:
Cryo-EM structure of LGR4-RSPO2 complex
Method: single particle / : Peng Y, Fujimura A, Asami J, Zhang Z, Shimizu T, Ohto U

PDB-9kb8:
Cryo-EM structure of LGR4-RSPO2-ZNRF3 complex (1:1:2)
Method: single particle / : Peng Y, Fujimura A, Asami J, Zhang Z, Shimizu T, Ohto U

PDB-9kb9:
Cryo-EM structure of LGR4-RSPO2-ZNRF3 complex (2:2:2)
Method: single particle / : Peng Y, Fujimura A, Asami J, Zhang Z, Shimizu T, Ohto U

EMDB-61514:
Cryo-EM structure of human ZnT3
Method: single particle / : Ishida H, Yo R, Zhnag Z, Shimizu T, Ohto U

EMDB-61515:
Cryo-EM structure of human ZnT3 under acidic conditions
Method: single particle / : Ishida H, Yo R, Zhnag Z, Shimizu T, Ohto U

EMDB-61516:
Cryo-EM structure of human ZnT4 D150N/D281N
Method: single particle / : Ishida H, Yo R, Zhnag Z, Shimizu T, Ohto U

PDB-9jj1:
Cryo-EM structure of human ZnT3
Method: single particle / : Ishida H, Yo R, Zhnag Z, Shimizu T, Ohto U

PDB-9jj2:
Cryo-EM structure of human ZnT3 under acidic conditions
Method: single particle / : Ishida H, Yo R, Zhnag Z, Shimizu T, Ohto U

PDB-9jj3:
Cryo-EM structure of human ZnT4 D150N/D281N
Method: single particle / : Ishida H, Yo R, Zhnag Z, Shimizu T, Ohto U

EMDB-61213:
Cryo-EM structure of wild type Aquifex aeolicus RseP in complex with Fab
Method: single particle / : Asahi K, Hirose M, Aruga R, Kato T, Nogi T

EMDB-61214:
Cryo-EM structure of Aquifex aeolicus RseP E18Q mutant in complex with Fab
Method: single particle / : Asahi K, Hirose M, Aruga R, Kato T, Nogi T

PDB-9j82:
Cryo-EM structure of wild type Aquifex aeolicus RseP in complex with Fab
Method: single particle / : Asahi K, Hirose M, Aruga R, Kato T, Nogi T

PDB-9j83:
Cryo-EM structure of Aquifex aeolicus RseP E18Q mutant in complex with Fab
Method: single particle / : Asahi K, Hirose M, Aruga R, Kato T, Nogi T

EMDB-38877:
Cryo-EM structure of the overlapping di-nucleosome (closed form)
Method: single particle / : Tanaka H, Nishimura M, Takizawa Y, Nozawa K, Ehara H, Sekine S, Kurumizaka H

EMDB-38878:
Cryo-EM structure of the overlapping di-nucleosome (intermediate form2)
Method: single particle / : Tanaka H, Nishimura M, Takizawa Y, Nozawa K, Ehara H, Sekine S, Kurumizaka H

EMDB-38879:
Cryo-EM structure of the overlapping di-nucleosome (open form)
Method: single particle / : Tanaka H, Nishimura M, Takizawa Y, Nozawa K, Ehara H, Sekine S, Kurumizaka H

EMDB-38880:
Cryo-EM structure of the overlapping di-nucleosome (intermediate form1)
Method: single particle / : Tanaka H, Nishimura M, Takizawa Y, Nozawa K, Ehara H, Sekine S, Kurumizaka H

PDB-8y3c:
Cryo-EM structure of the overlapping di-nucleosome (closed form)
Method: single particle / : Tanaka H, Nishimura M, Takizawa Y, Nozawa K, Ehara H, Sekine S, Kurumizaka H

PDB-8y3d:
Cryo-EM structure of the overlapping di-nucleosome (intermediate form2)
Method: single particle / : Tanaka H, Nishimura M, Takizawa Y, Nozawa K, Ehara H, Sekine S, Kurumizaka H

PDB-8y3e:
Cryo-EM structure of the overlapping di-nucleosome (open form)
Method: single particle / : Tanaka H, Nishimura M, Takizawa Y, Nozawa K, Ehara H, Sekine S, Kurumizaka H

PDB-8y3f:
Cryo-EM structure of the overlapping di-nucleosome (intermediate form1)
Method: single particle / : Tanaka H, Nishimura M, Takizawa Y, Nozawa K, Ehara H, Sekine S, Kurumizaka H

EMDB-50034:
SARS-CoV-2 M protein dimer (short form) in complex with Fab-B and CIM-834
Method: single particle / : Debski-Antoniak OJ, Hurdiss DL

EMDB-50035:
SARS-CoV-2 M protein dimer (long form) in complex with Fab-E and incubated with CIM-834
Method: single particle / : Debski-Antoniak O, Hurdiss DL

PDB-9exa:
SARS-CoV-2 M protein dimer (short form) in complex with Fab-B and CIM-834
Method: single particle / : Debski-Antoniak OJ, Hurdiss DL

EMDB-36939:
Human Fc epsilon RI in complex with hIgE Fc (TMD disordered)
Method: single particle / : Zhang Z, Yui M, Ohto U, Shimizu T

EMDB-36940:
Human Fc epsilon RI in complex with mIgE Fc (TMD disordered)
Method: single particle / : Zhang Z, Yui M, Ohto U, Shimizu T

PDB-8k7r:
Human Fc epsilon RI in complex with hIgE Fc (TMD disordered)
Method: single particle / : Zhang Z, Yui M, Ohto U, Shimizu T

PDB-8k7s:
Human Fc epsilon RI in complex with mIgE Fc (TMD disordered)
Method: single particle / : Zhang Z, Yui M, Ohto U, Shimizu T

EMDB-60274:
SARS-CoV-2 XBB.1.5 spike glycoprotein trimer in complex with antigen-binding fragments (Fabs)
Method: single particle / : Sugita Y, Kimura K, Noda T, Hashiguchi T

EMDB-37897:
Cryo-EM structure of mouse SLC15A3 (outward-facing open)
Method: single particle / : Kasai S, Zhang Z, Ohto U, Shimizu T

PDB-8wx1:
Cryo-EM structure of mouse SLC15A3 (outward-facing open)
Method: single particle / : Kasai S, Zhang Z, Ohto U, Shimizu T

EMDB-61746:
Cryo-EM structure of PTH-PTH1R-Gq (upright state)
Method: single particle / : Sano FK, Hirano H, Itoh Y, Nureki O

EMDB-61747:
Cryo-EM structure of PTH-PTH1R-Gq (tilted state)
Method: single particle / : Sano FK, Hirano H, Itoh Y, Nureki O

EMDB-61795:
Cryo-EM structure of PTH-PTH1R-Gq complex (upright state; consensus refinement)
Method: single particle / : Sano FK, Hirano H, Itoh Y, Nureki O

EMDB-61796:
Cryo-EM structure of PTH-PTH1R-Gq complex (upright state; receptor focused refinement)
Method: single particle / : Sano FK, Hirano H, Itoh Y, Nureki O

Pages:

+
About EMN search

-
News

-
Feb 9, 2022. New format data for meta-information of EMDB entries

New format data for meta-information of EMDB entries

  • Version 3 of the EMDB header file is now the official format.
  • The previous official version 1.9 will be removed from the archive.

Related info.:EMDB header

External links:wwPDB to switch to version 3 of the EMDB data model

-
Oct 5, 2021. Nobel Prize for mechanically activated and temperature-gated ion channels

Nobel Prize for mechanically activated and temperature-gated ion channels

  • The Nobel Prize in Physiology or Medicine 2021 was awarded jointly to David Julius and Ardem Patapoutian "for their discoveries of receptors for temperature and touch."
  • EM Navigator can help to find cryo-EM structure data by both pioneers.

External links:The Nobel Prize in Physiology or Medicine 2021 - NobelPrize.org / Structure data by Ardem Patapoutian / Structure data by David Julius

+
Aug 12, 2020. Covid-19 info

Covid-19 info

URL: https://pdbj.org/emnavi/covid19.php

New page: Covid-19 featured information page in EM Navigator.

Related info.:Covid-19 info / Mar 5, 2020. Novel coronavirus structure data

+
Mar 5, 2020. Novel coronavirus structure data

Novel coronavirus structure data

Related info.:Yorodumi Speices / Aug 12, 2020. Covid-19 info

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

-
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 are the data sources of EM Navigator? / Yorodumi Search / Jul 5, 2019. Downlodablable text data

Read more