[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 82 items for (author: anraku & y)

EMDB-63071:
SARS-CoV-2 spike glycoprotein trimer in prefusion form (1-RBD up state)
Method: single particle / : Fukuhara H, Anraku Y, Kita S, Maenaka K

EMDB-39370:
SARS-CoV-2 spike glycoprotein in complex with NT-108 scFv (1-up state)
Method: single particle / : Anraku Y, Kita S, Onodera T, Tadokoro T, Ito S, Adachi Y, Kotaki R, Suzuki T, Hashiguchi T, Takahashi Y, Maenaka K

EMDB-39371:
SARS-CoV-2 spike glycoprotein in complex with NT-108 scFv (2-up state)
Method: single particle / : Anraku Y, Kita S, Onodera T, Tadokoro T, Ito S, Adachi Y, Kotaki R, Suzuki T, Hashiguchi T, Takahashi Y, Maenaka K

EMDB-39372:
SARS-CoV-2 spike glycoprotein in complex with NT-108 scFv focused on RBD and NT-108 scFv interface
Method: single particle / : Anraku Y, Kita S, Onodera T, Tadokoro T, Ito S, Adachi Y, Kotaki R, Suzuki T, Hashiguchi T, Takahashi Y, Maenaka K

PDB-8ykg:
Structure of SARS-CoV-2 spike glycoprotein in complex with NT-108 scFv (1-up state)
Method: single particle / : Anraku Y, Kita S, Onodera T, Tadokoro T, Ito S, Adachi Y, Kotaki R, Suzuki T, Hashiguchi T, Takahashi Y, Maenaka K

PDB-8ykh:
Structure of SARS-CoV-2 spike RBD in complex with NT-108 scFv
Method: single particle / : Anraku Y, Kita S, Onodera T, Tadokoro T, Ito S, Adachi Y, Kotaki R, Suzuki T, Hashiguchi T, Takahashi Y, Maenaka K

EMDB-37910:
Structure of the SARS-CoV-2 BA.2.86 spike glycoprotein (closed state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

EMDB-38459:
Structure of the SARS-CoV-2 BA.2.86 spike protein (1-up state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

EMDB-38686:
Structure of SARS-CoV-2 BA.2.86 spike glycoprotein in complex with ACE2 (2-up state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

EMDB-38687:
Structure of SARS-CoV-2 BA.2.86 spike glycoprotein in complex with ACE2 (2-up and 1-down state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

EMDB-38688:
Structure of SARS-CoV-2 BA.2.86 spike RBD in complex with ACE2 (up state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

EMDB-38689:
Structure of SARS-CoV-2 BA.2.86 spike RBD in complex with ACE2 (down state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

EMDB-38690:
Structure of SARS-CoV-2 BA.2.86 spike glycoprotein in complex with ACE2 (3-up state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

EMDB-60886:
Structure of SARS-CoV-2 JN.1 spike RBD in complex with ACE2 (up state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

EMDB-60904:
Structure of SARS-CoV-2 JN.1 spike glycoprotein in complex with ACE2 (2-up state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

EMDB-60905:
Structure of SARS-CoV-2 BA.2.86 spike glycoprotein in complex with ACE2 (1 highly-open RBD and 1 partially-open RBD)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

EMDB-60906:
Structure of SARS-CoV-2 JN.1 spike glycoprotein in complex with ACE2 (2-up and 1-down state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

PDB-8wxl:
Structure of the SARS-CoV-2 BA.2.86 spike glycoprotein (closed state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

PDB-8xux:
Structure of the SARS-CoV-2 BA.2.86 spike protein (1-up state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

PDB-8xuy:
Structure of SARS-CoV-2 BA.2.86 spike glycoprotein in complex with ACE2 (2-up state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

PDB-8xuz:
Structure of SARS-CoV-2 BA.2.86 spike glycoprotein in complex with ACE2 (2-up and 1-down state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

PDB-8xv0:
Structure of SARS-CoV-2 BA.2.86 spike RBD in complex with ACE2 (up state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

PDB-8xv1:
Structure of SARS-CoV-2 BA.2.86 spike RBD in complex with ACE2 (down state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

PDB-8xvm:
Structure of SARS-CoV-2 BA.2.86 spike glycoprotein in complex with ACE2 (3-up state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

PDB-9iu1:
Structure of SARS-CoV-2 JN.1 spike RBD in complex with ACE2 (up state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Maenaka K, Hashiguchi T

EMDB-38453:
Structure of the SARS-CoV-2 EG.5.1 spike glycoprotein in complex with ACE2 (1-up state)
Method: single particle / : Nomai T, Anraku Y, Kita S, Hashiguchi T, Maenaka K

EMDB-38454:
Structure of the SARS-CoV-2 EG.5.1 spike RBD in complex with ACE2
Method: single particle / : Nomai T, Anraku Y, Kita S, Hashiguchi T, Maenaka K

PDB-8xlm:
Structure of the SARS-CoV-2 EG.5.1 spike glycoprotein in complex with ACE2 (1-up state)
Method: single particle / : Nomai T, Anraku Y, Kita S, Hashiguchi T, Maenaka K

PDB-8xln:
Structure of the SARS-CoV-2 EG.5.1 spike RBD in complex with ACE2
Method: single particle / : Nomai T, Anraku Y, Kita S, Hashiguchi T, Maenaka K

EMDB-37648:
SARS-CoV-2 EG.5.1 spike glycoprotein (1-up state)
Method: single particle / : Nomai T, Anraku Y, Kita S, Hashiguchi T, Maenaka K

EMDB-37650:
SARS-CoV-2 EG.5.1 spike glycoprotein (closed-2 state)
Method: single particle / : Nomai T, Anraku Y, Kita S, Hashiguchi T, Maenaka K

EMDB-37651:
SARS-CoV-2 EG.5.1 spike glycoprotein (closed-1 state)
Method: single particle / : Nomai T, Anraku Y, Kita S, Hashiguchi T, Maenaka K

PDB-8wmd:
Structure of the SARS-CoV-2 EG.5.1 spike glycoprotein (closed-2 state)
Method: single particle / : Nomai T, Anraku Y, Kita S, Hashiguchi T, Maenaka K

PDB-8wmf:
Structure of the SARS-CoV-2 EG.5.1 spike glycoprotein (closed-1 state)
Method: single particle / : Nomai T, Anraku Y, Kita S, Hashiguchi T, Maenaka K

EMDB-36724:
Structure of the SARS-CoV-2 XBB.1.5 spike glycoprotein (closed state 1)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Sasaki J, Sasaki-Tabata K, Maenaka K, Hashiguchi T

EMDB-36726:
Structure of the SARS-CoV-2 XBB.1.5 spike glycoprotein (closed state 2)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Sasaki J, Sasaki-Tabata K, Maenaka K, Hashiguchi T

EMDB-36727:
Structure of SARS-CoV-2 XBB.1.5 spike glycoprotein in complex with ACE2 (1-up state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Sasaki J, Sasaki-Tabata K, Maenaka K, Hashiguchi T

EMDB-36728:
Structure of SARS-CoV-2 XBB.1.5 spike glycoprotein in complex with ACE2 (2-up state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Sasaki J, Sasaki-Tabata K, Maenaka K, Hashiguchi T

EMDB-36729:
Structure of SARS-CoV-2 XBB.1.5 spike RBD in complex with ACE2
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Sasaki J, Sasaki-Tabata K, Maenaka K, Hashiguchi T

PDB-8jyk:
Structure of the SARS-CoV-2 XBB.1.5 spike glycoprotein (closed state 1)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Sasaki J, Sasaki-Tabata K, Maenaka K, Hashiguchi T

PDB-8jym:
Structure of the SARS-CoV-2 XBB.1.5 spike glycoprotein (closed state 2)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Sasaki J, Sasaki-Tabata K, Maenaka K, Hashiguchi T

PDB-8jyn:
Structure of SARS-CoV-2 XBB.1.5 spike glycoprotein in complex with ACE2 (1-up state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Sasaki J, Sasaki-Tabata K, Maenaka K, Hashiguchi T

PDB-8jyo:
Structure of SARS-CoV-2 XBB.1.5 spike glycoprotein in complex with ACE2 (2-up state)
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Sasaki J, Sasaki-Tabata K, Maenaka K, Hashiguchi T

PDB-8jyp:
Structure of SARS-CoV-2 XBB.1.5 spike RBD in complex with ACE2
Method: single particle / : Yajima H, Anraku Y, Kita S, Kimura K, Sasaki J, Sasaki-Tabata K, Maenaka K, Hashiguchi T

EMDB-36905:
SARS-CoV-2 BA.1 RBD with UT28-RD
Method: single particle / : Chen L, Kita S, Anraku Y, Maenaka K

EMDB-36906:
SARS-CoV-2 BA.1 spike with UT28-RD
Method: single particle / : Chen L, Kita S, Anraku Y, Maenaka K

PDB-8k5g:
Structure of the SARS-CoV-2 BA.1 RBD with UT28-RD
Method: single particle / : Chen L, Kita S, Anraku Y, Maenaka K

PDB-8k5h:
Structure of the SARS-CoV-2 BA.1 spike with UT28-RD
Method: single particle / : Chen L, Kita S, Anraku Y, Maenaka K

EMDB-34741:
SARS-CoV-2 spike in complex with neutralizing antibody NIV-11
Method: single particle / : Moriyama S, Anraku Y, Muranishi S, Adachi Y, Kuroda D, Higuchi Y, Kotaki R, Tonouchi K, Yumoto K, Suzuki T, Kita S, Someya T, Fukuhara H, Kuroda Y, Yamamoto T, Onodera T, Fukushi S, Maeda K, Nakamura-Uchiyama F, Hashiguchi T, Hoshino A, Maenaka K, Takahashi Y

EMDB-34742:
SARS-CoV-2 spike in complex with neutralizing antibody NIV-11 focused on RBD and NIV-11 interface
Method: single particle / : Moriyama S, Anraku Y, Muranishi S, Adachi Y, Kuroda D, Higuchi Y, Kotaki R, Tonouchi K, Yumoto K, Suzuki T, Kita S, Someya T, Fukuhara H, Kuroda Y, Yamamoto T, Onodera T, Fukushi S, Maeda K, Nakamura-Uchiyama F, Hashiguchi T, Hoshino A, Maenaka K, Takahashi Y

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