[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 83 items for (author: fujii & k)

EMDB-63297:
Cryo-EM map of collagenase H (E416Q mutant) from Hathewaya histolytica bound to C-terminal region of collagen model peptide (Pro-Hyp-Gly)10
Method: single particle / : Oki H, Kawahara K

EMDB-63331:
Consensus map of apo collagenase H from Hathewaya histolytica
Method: single particle / : Oki H, Kawahara K

EMDB-63332:
Cryo-EM map of apo collagenase H from Hathewaya histolytica - focused map of the Peptidase-Helper-PKD1 domains
Method: single particle / : Oki H, Kawahara K

EMDB-63333:
Cryo-EM map of apo collagenase H from Hathewaya histolytica - focused map of the ARM domain
Method: single particle / : Oki H, Kawahara K

EMDB-63334:
Consensus map of collagenase H (E416Q mutant) from Hathewaya histolytica in complex with collagen model peptide (Pro-Hyp-Gly)10
Method: single particle / : Oki H, Kawahara K

EMDB-63335:
Cryo-EM map of collagenase H (E416Q mutant) from Hathewaya histolytica in complex with collagen model peptide (Pro-Hyp-Gly)10 - focused map of ColH bound to the C-terminal region of collagen model peptide
Method: single particle / : Oki H, Kawahara K

EMDB-63336:
Cryo-EM map of collagenase H (E416Q mutant) from Hathewaya histolytica in complex with collagen model peptide (Pro-Hyp-Gly)10 - focused map of ColH bound to the N-terminal region of collagen model peptide
Method: single particle / : Oki H, Kawahara K

EMDB-63337:
Composite map of apo collagenase H from Hathewaya histolytica
Method: single particle / : Oki H, Kawahara K

EMDB-63339:
Composite map of collagenase H (E416Q mutant) from Hathewaya histolytica in complex with collagen model peptide (Pro-Hyp-Gly)10
Method: single particle / : Oki H, Kawahara K

EMDB-63508:
Consensus map of collagenase H (E416Q mutant) from Hathewaya histolytica in complex with collagen model peptide (Pro-Hyp-Gly)12
Method: single particle / : Oki H, Kawahara K

EMDB-63509:
Cryo-EM map of collagenase H (E416Q mutant) from Hathewaya histolytica in complex with collagen model peptide (Pro-Hyp-Gly)12 - focused map of the ARM domain
Method: single particle / : Oki H, Kawahara K

EMDB-63510:
Cryo-EM map of collagenase H (E416Q mutant) from Hathewaya histolytica in complex with collagen model peptide (Pro-Hyp-Gly)12 - focused map of the Peptidase-Helper-PKD1 domains
Method: single particle / : Oki H, Kawahara K

EMDB-63511:
Composite map of collagenase H (E416Q mutant) from Hathewaya histolytica in complex with collagen model peptide (Pro-Hyp-Gly)12
Method: single particle / : Oki H, Kawahara K

EMDB-65889:
Cryo-EM structure of collagenase H (E416Q mutant) from Hathewaya histolytica bound to C-terminal region of the collagen-binding protein ColH (Pro-Pro-Gly)10
Method: single particle / : Oki H, Kawahara K

PDB-9lqj:
Cryo-EM structure of collagenase H (E416Q mutant) from Hathewaya histolytica bound to C-terminal region of collagen model peptide (Pro-Hyp-Gly)10
Method: single particle / : Oki H, Kawahara K

PDB-9lrk:
Cryo-EM structure of apo collagenase H from Hathewaya histolytica
Method: single particle / : Oki H, Kawahara K

PDB-9lrm:
Cryo-EM structure of collagenase H (E416Q mutant) from Hathewaya histolytica in complex with collagen model peptide (Pro-Hyp-Gly)10
Method: single particle / : Oki H, Kawahara K

PDB-9lyi:
Cryo-EM structure of collagenase H (E416Q mutant) from Hathewaya histolytica in complex with collagen model peptide (Pro-Hyp-Gly)12
Method: single particle / : Oki H, Kawahara K

PDB-9wdc:
Cryo-EM structure of collagenase H (E416Q mutant) from Hathewaya histolytica bound to C-terminal region of the collagen-binding protein ColH (Pro-Pro-Gly)10
Method: single particle / : Oki H, Kawahara K

EMDB-64036:
Cryo-EM structure of the Lhcp trimer from Ostreococcus tauri at 1.94 angstrom resolution
Method: single particle / : Seki S, Kubota M, Ishii A, Kim E, Tanaka H, Miyata T, Namba K, Kurisu G, Minagawa J, Fujii R

PDB-9uc6:
Cryo-EM structure of the Lhcp trimer from Ostreococcus tauri at 1.94 angstrom resolution
Method: single particle / : Seki S, Kubota M, Ishii A, Kim E, Tanaka H, Miyata T, Namba K, Kurisu G, Minagawa J, Fujii R

EMDB-63799:
Cryo-EM structure of violaxanthin-chlorophyll-a-binding protein with red shifted Chl a (rVCP) from Trachydiscus minutus at 2.4 angstrom
Method: single particle / : Seki S, Litvin R, Bina D, Tanaka H, Miyata T, Namba K, Kurisu G, Polivka T, Fujii R

PDB-9mcc:
Cryo-EM structure of violaxanthin-chlorophyll-a-binding protein with red shifted Chl a (rVCP) from Trachydiscus minutus at 2.4 angstrom
Method: single particle / : Seki S, Litvin R, Bina D, Tanaka H, Miyata T, Namba K, Kurisu G, Polivka T, Fujii R

EMDB-62399:
CryoEM structure of Pleurocybella porrigens lectin (PPL) in complex with GalNAc
Method: single particle / : Ishimoto N, Adachi D, Kawabata H, Park SY, Tame JRH, Kamata K

PDB-9kl3:
CryoEM structure of Pleurocybella porrigens lectin (PPL) in complex with GalNAc
Method: single particle / : Ishimoto N, Adachi D, Kawabata H, Park SY, Tame JRH, Kamata K

EMDB-66460:
Cryo-EM Structure of human complement C1s CUB domain in complex with RAY121
Method: single particle / : Kawauchi H, Adrian H, Gupta G, Koga H, Fujii T, Fukumura T, Ishino S, Irie M, Torizawa T

PDB-9x1h:
Cryo-EM Structure of human complement C1s CUB domain in complex with RAY121
Method: single particle / : Kawauchi H, Adrian H, Gupta G, Koga H, Fujii T, Fukumura T, Ishino S, Irie M, Torizawa T

EMDB-38604:
RNA polymerase II elongation complex with upstream nucleosome extracted from human nuclei
Method: single particle / : Kujirai T, Kato J, Yamamoto K, Hirai S, Negishi L, Ogasawara M, Takizawa Y, Kurumizaka H

EMDB-38607:
RNA polymerase II elongation complex with DSIF, SPT6, and ELOF1 transcribing genomic DNA extracted from human nuclei
Method: single particle / : Kujirai T, Kato J, Yamamoto K, Hirai S, Negishi L, Ogasawara M, Takizawa Y, Kurumizaka H

EMDB-38624:
RNA polymerase II elongation complex transcribing genomic DNA extracted from human nuclei
Method: single particle / : Kujirai T, Kato J, Yamamoto K, Hirai S, Negishi L, Ogasawara M, Takizawa Y, Kurumizaka H

EMDB-38717:
RNA polymerase II elongation complex with downstream nucleosome extracted from human nuclei
Method: single particle / : Kujirai T, Kato J, Yamamoto K, Hirai S, Negishi L, Ogasawara M, Takizawa Y, Kurumizaka H

PDB-8xrj:
RNA polymerase II elongation complex with upstream nucleosome extracted from human nuclei
Method: single particle / : Kujirai T, Kato J, Yamamoto K, Hirai S, Negishi L, Ogasawara M, Takizawa Y, Kurumizaka H

PDB-8xrm:
RNA polymerase II elongation complex with DSIF, SPT6, and ELOF1 transcribing genomic DNA extracted from human nuclei
Method: single particle / : Kujirai T, Kato J, Yamamoto K, Hirai S, Negishi L, Ogasawara M, Takizawa Y, Kurumizaka H

PDB-8xso:
RNA polymerase II elongation complex transcribing genomic DNA extracted from human nuclei
Method: single particle / : Kujirai T, Kato J, Yamamoto K, Hirai S, Negishi L, Ogasawara M, Takizawa Y, Kurumizaka H

PDB-8xvs:
RNA polymerase II elongation complex with downstream nucleosome extracted from human nuclei
Method: single particle / : Kujirai T, Kato J, Yamamoto K, Hirai S, Negishi L, Ogasawara M, Takizawa Y, Kurumizaka H

EMDB-38825:
Cryo-EM structure of Light-harvesting complex from Spinacia oleracea
Method: single particle / : Seki S, Miyata T, Tanaka H, Namba K, Kurisu G, Fujii R

EMDB-39192:
Cryo-EM structure of in vitro reconstituted Light-harvesting complex II trimer
Method: single particle / : Seki S, Miyata T, Tanaka H, Namba K, Kurisu G, Fujii R

EMDB-39304:
Cryo-EM structure of light-harvesting complex II with C1 symmetry
Method: single particle / : Seki S, Miyata T, Tanaka H, Namba K, Kurisu G, Fujii R

EMDB-39305:
Cryo-EM structure of in vitro reconstituted LHCII with C1 symmetry
Method: single particle / : Seki S, Miyata T, Tanaka H, Namba K, Kurisu G, Fujii R

PDB-8y15:
Cryo-EM structure of Light-harvesting complex from Spinacia oleracea
Method: single particle / : Seki S, Miyata T, Tanaka H, Namba K, Kurisu G, Fujii R

PDB-8yee:
Cryo-EM structure of in vitro reconstituted Light-harvesting complex II trimer
Method: single particle / : Seki S, Miyata T, Tanaka H, Namba K, Kurisu G, Fujii R

EMDB-35448:
Overlapping tri-nucleosome
Method: single particle / : Nishimura M, Fujii T, Tanaka H, Maehara K, Nozawa K, Takizawa Y, Ohkawa Y, Kurumizaka H

PDB-8ihl:
Overlapping tri-nucleosome
Method: single particle / : Nishimura M, Fujii T, Tanaka H, Maehara K, Nozawa K, Takizawa Y, Ohkawa Y, Kurumizaka H

EMDB-32588:
The Cryo-EM structure of siphonaxanthin chlorophyll a/b type light-harvesting complex II
Method: single particle / : Seki S, Nakaniwa T, Castro-Hartmann P, Sader K, Kawamoto A, Tanaka H, Qian P, Kurisu G, Fujii R

PDB-7wlm:
The Cryo-EM structure of siphonaxanthin chlorophyll a/b type light-harvesting complex II
Method: single particle / : Seki S, Nakaniwa T, Castro-Hartmann P, Sader K, Kawamoto A, Tanaka H, Qian P, Kurisu G, Fujii R

EMDB-32381:
Trichodesmium erythraeum cyanophycin synthetase 1 (TeCphA1)
Method: single particle / : Kawasaki M, Miyakawa T

EMDB-32382:
Trichodesmium erythraeum cyanophycin synthetase 1 (TeCphA1) with ATPgammaS
Method: single particle / : Kawasaki M, Miyakawa T

EMDB-32383:
Trichodesmium erythraeum cyanophycin synthetase 1 (TeCphA1) with ATPgammaS, 4x(beta-Asp-Arg), and aspartate
Method: single particle / : Miyakawa T, Yang J

EMDB-32384:
Trichodesmium erythraeum cyanophycin synthetase 1 (TeCphA1) with ATPgammaS and 4x(beta-Asp-Arg)
Method: single particle / : Miyakawa T, Yang J

PDB-7wac:
Trichodesmium erythraeum cyanophycin synthetase 1 (TeCphA1)
Method: single particle / : Kawasaki M, Miyakawa T, Yang J, Adachi N, Fujii A, Miyauchi Y, Muramatsu T, Moriya T, Senda T, Tanokura M

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