[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 146 items for (author: akatsu & m)

PDB-9org:
MicroED structure of apo-form CTX-M-14 beta-lactamase
Method: electron crystallography / : Vlahakis N, Rodriguez JA, Jacobs LMC, Chen Y

PDB-9orh:
MicroED structure of the CTX-M-14 beta-lactamase-avibactam complex from inhibitor cocktail-soaked crystals
Method: electron crystallography / : Vlahakis N, Rodriguez JA, Jacobs LMC, Chen Y

PDB-9orl:
MicroED structure of CTX-M-14 beta-lactamase soaked with avibactam
Method: electron crystallography / : Vlahakis NW, Rodriguez JA, Jacobs LMC, Chen Y

PDB-9ors:
MicroED structure of CTX-M-14 beta-lactamase co-crystallized with avibactam
Method: electron crystallography / : Vlahakis NW, Rodriguez JA, Jacobs LMC, Chen Y

PDB-9orz:
MicroED structure of apo-form lysozyme
Method: electron crystallography / : Vlahakis NW, Flowers CW, Rodriguez JA

PDB-9os0:
MicroED structure of lysozyme complexed with N,N',N"-triacetylchitotriose from cocktail-soaked crystals
Method: electron crystallography / : Vlahakis NW, Flowers CW, Rodriguez JA

PDB-9os1:
MicroED structure of lysozyme co-crystallized with N,N',N"-triacetylchitotriose
Method: electron crystallography / : Vlahakis NW, Flowers CW, Rodriguez JA

PDB-9os8:
MicroED structure of lysozyme soaked with N,N',N"-triacetylchitotriose
Method: electron crystallography / : Vlahakis NW, Flowers CW, Rodriguez JA

EMDB-60592:
RNA polymerase II elongation complex stalled at SHL(-5) of the nucleosome containing histone variant H2A.B
Method: single particle / : Akatsu M, Kujirai T, Hirano R, Ehara H, Takizawa Y, Sekine S, Kurumizaka H

EMDB-60593:
RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome containing histone variant H2A.B
Method: single particle / : Akatsu M, Kujirai T, Rina H, Ehara H, Takizawa Y, Sekine S, Kurumizaka H

PDB-9ii7:
RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome containing histone variant H2A.B
Method: single particle / : Akatsu M, Kujirai T, Rina H, Ehara H, Takizawa Y, Sekine S, Kurumizaka H

PDB-9nbp:
MicroED structure of the papain-E-64 complex from microcrystals mixed on-grid with microarrayed ligand
Method: electron crystallography / : Vlahakis N, Rodriguez JA

PDB-9nbq:
MicroED structure of papain co-crystallized with E-64D
Method: electron crystallography / : Vlahakis N, Rodriguez JA

PDB-9nc1:
MicroED structure of papain-E-64 complex from microcrystals soaked with protease inhibitor cocktail
Method: electron crystallography / : Vlahakis N, Rodriguez JA

PDB-9nca:
MicroED structure of microcrystals soaked with a mixture of E-64, E-64C, and E-64D
Method: electron crystallography / : Vlahakis N, Rodriguez JA

PDB-9n9d:
MicroED structure of papain co-crystallized with E-64C
Method: electron crystallography / : Vlahakis N, Rodriguez JA

PDB-9nae:
MicroED structure of papain co-crystallized with E-64
Method: electron crystallography / : Vlahakis N, Rodriguez JA

PDB-9nag:
MicroED structure of the apo-form of papain
Method: electron crystallography / : Vlahakis N, Rodriguez JA

PDB-9nao:
MicroED structure of papain complexed with natural product E64-A65
Method: electron crystallography / : Vlahakis NW, Rodriguez JA

PDB-9nar:
MicroED structure of papain microcrystals soaked with E-64 for 10 minutes
Method: electron crystallography / : Vlahakis NW, Rodriguez JA

PDB-9nax:
MicroED structure of the papain-E-64 complex from microcrystals soaked with crude biosynthetic reaction mixture
Method: electron crystallography / : Vlahakis NW, Rodriguez JA

PDB-9nay:
MicroED structure of papain complexed with natural product E-64-A65 from microcrystals soaked in crude biosynthetic reaction mixture
Method: electron crystallography / : Vlahakis NW, Rodriguez JA

EMDB-19926:
CTE type I tau filament from vacuolar tauopathy
Method: helical / : Qi C, Scheres HWS, Goedert M

EMDB-19927:
CTE type II tau filament from vacuolar tauopathy
Method: helical / : Qi C, Scheres HWS, Goedert M

EMDB-19928:
CTE type II tau filament from vacuolar tauopathy
Method: helical / : Qi C, Scheres HWS, Goedert M

PDB-9erm:
CTE type I tau filament from vacuolar tauopathy
Method: helical / : Qi C, Scheres HWS, Goedert M

PDB-9ern:
CTE type II tau filament from vacuolar tauopathy
Method: helical / : Qi C, Scheres HWS, Goedert M

PDB-9ero:
CTE type III tau filament from vacuolar tauopathy
Method: helical / : Qi C, Scheres HWS, Goedert M

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-35029:
SARS-CoV2 spike protein with ACE2, no ACE2 binding.
Method: single particle / : Kishikawa J, Hirose M, Kato T, Okamoto T

EMDB-35030:
SARS-CoV2 spike protein with ACE2. 1 ACE2 bound form.
Method: single particle / : Kishikawa J, Hirose M, Kato T, Okamoto T

EMDB-35031:
SARS-CoV2 spike protein with ACE2. 2 ACE2 bound form.
Method: single particle / : Kishikawa J, Hirose M, Kato T, Okamoto T

EMDB-35032:
SARS-CoV2 spike protein with ACE2. 3 ACE2 bound form.
Method: single particle / : Kishikawa J, Hirose M, Kato T, Okamoto T

EMDB-35036:
SARS-CoV2 spike protein with ACE2 decoy.no ACE2 decoy binding
Method: single particle / : Kishikawa J, Hirose M, Kato T, Okamoto T

EMDB-35037:
SARS-CoV2 spike protein with ACE2 decoy. 1 ACE2 decoy bound form.
Method: single particle / : Kishikawa J, Hirose M, Kato T, Okamoto T

EMDB-35038:
SARS-CoV2 spike protein with ACE2 decoy. 1 ACE2 decoy bound and 2 RBD up form.
Method: single particle / : Kishikawa J, Hirose M, Kato T, Okamoto T

EMDB-35039:
SARS-CoV2 spike protein with ACE2 decoy. 2 ACE2 decoy bound form.
Method: single particle / : Kishikawa J, Hirose M, Kato T, Okamoto T

EMDB-35040:
SARS-CoV2 spike protein with ACE2 decoy. 3 ACE2 decoy bound form.
Method: single particle / : Kishikawa J, Hirose M, Kato T, Okamoto T

EMDB-36345:
RBD of SARS-CoV2 spike protein with ACE2 decoy
Method: single particle / : Kishikawa J, Hirose M, Kato T, Okamoto T

PDB-8jje:
RBD of SARS-CoV2 spike protein with ACE2 decoy
Method: single particle / : Kishikawa J, Hirose M, Kato T, Okamoto T

EMDB-36251:
RNA polymerase II elongation complex bound with Elf1, Spt4/5 and foreign DNA, stalled at SHL(-1) of the nucleosome
Method: single particle / : Akatsu M, Fujita R, Ogasawara M, Ehara H, Kujirai T, Takizawa Y, Sekine S, Kurumizaka H

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