[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 97 items for (author: sakamoto & m)

EMDB-62386:
Structure of the human 40S ribosome complexed with HCV IRES and eIF3
Method: single particle / : Iwasaki W, Kashiwagi K, Sakamoto A, Nishimoto M, Takahashi M, Machida K, Imataka H, Matsumoto A, Shichino Y, Iwasaki S, Imami K, Ito T

EMDB-62453:
Structure of the human 40S ribosome complexed with HCV IRES, eIF1A and eIF3
Method: single particle / : Iwasaki W, Kashiwagi K, Sakamoto A, Nishimoto M, Takahashi M, Machida K, Imataka H, Matsumoto A, Shichino Y, Iwasaki S, Imami K, Ito T

EMDB-62454:
Structure of the HCV IRES-dependent pre-48S translation initiation complex with eIF1A, eIF5B, and eIF3
Method: single particle / : Iwasaki W, Kashiwagi K, Sakamoto A, Nishimoto M, Takahashi M, Machida K, Imataka H, Matsumoto A, Shichino Y, Iwasaki S, Imami K, Ito T

EMDB-62535:
Structure of the HCV IRES-dependent 48S translation initiation complex with eIF5B and eIF3
Method: single particle / : Iwasaki W, Kashiwagi K, Sakamoto A, Nishimoto M, Takahashi M, Machida K, Imataka H, Matsumoto A, Shichino Y, Iwasaki S, Imami K, Ito T

EMDB-62671:
Cryo-EM structure of the HCV IRES-dependently initiated CMV-stalled 80S ribosome (non-rotated state) in complexed with eIF3
Method: single particle / : Iwasaki W, Kashiwagi K, Sakamoto A, Nishimoto M, Takahashi M, Machida K, Imataka H, Matsumoto A, Shichino Y, Iwasaki S, Imami K, Ito T

EMDB-62679:
Cryo-EM structure of the HCV IRES-dependently initiated CMV-stalled 80S ribosome (rotated state) in complexed with eIF3
Method: single particle / : Iwasaki W, Kashiwagi K, Sakamoto A, Nishimoto M, Takahashi M, Machida K, Imataka H, Matsumoto A, Shichino Y, Iwasaki S, Imami K, Ito T

PDB-9kkf:
Structure of the human 40S ribosome complexed with HCV IRES and eIF3
Method: single particle / : Iwasaki W, Kashiwagi K, Sakamoto A, Nishimoto M, Takahashi M, Machida K, Imataka H, Matsumoto A, Shichino Y, Iwasaki S, Imami K, Ito T

PDB-9kn5:
Structure of the human 40S ribosome complexed with HCV IRES, eIF1A and eIF3
Method: single particle / : Iwasaki W, Kashiwagi K, Sakamoto A, Nishimoto M, Takahashi M, Machida K, Imataka H, Matsumoto A, Shichino Y, Iwasaki S, Imami K, Ito T

PDB-9kn6:
Structure of the HCV IRES-dependent pre-48S translation initiation complex with eIF1A, eIF5B, and eIF3
Method: single particle / : Iwasaki W, Kashiwagi K, Sakamoto A, Nishimoto M, Takahashi M, Machida K, Imataka H, Matsumoto A, Shichino Y, Iwasaki S, Imami K, Ito T

PDB-9krp:
Structure of the HCV IRES-dependent 48S translation initiation complex with eIF5B and eIF3
Method: single particle / : Iwasaki W, Kashiwagi K, Sakamoto A, Nishimoto M, Takahashi M, Machida K, Imataka H, Matsumoto A, Shichino Y, Iwasaki S, Imami K, Ito T

PDB-9kzu:
Cryo-EM structure of the HCV IRES-dependently initiated CMV-stalled 80S ribosome (non-rotated state) in complexed with eIF3
Method: single particle / : Iwasaki W, Kashiwagi K, Sakamoto A, Nishimoto M, Takahashi M, Machida K, Imataka H, Matsumoto A, Shichino Y, Iwasaki S, Imami K, Ito T

PDB-9kzx:
Cryo-EM structure of the HCV IRES-dependently initiated CMV-stalled 80S ribosome (rotated state) in complexed with eIF3
Method: single particle / : Iwasaki W, Kashiwagi K, Sakamoto A, Nishimoto M, Takahashi M, Machida K, Imataka H, Matsumoto A, Shichino Y, Iwasaki S, Imami K, Ito T

EMDB-62570:
Cryo-EM structure of the TIA-1 prion-like domain amyloid fibril, WT
Method: helical / : Inaoka D, Miyata T, Makino F, Ohtani Y, Ekari M, Kobayashi R, Imamura K, Sakamoto E, Kodama ST, Yoshida N, Kato T, Namba K, Tochio H, Sekiyama N

EMDB-62571:
Cryo-EM structure of the TIA-1 prion-like domain amyloid fibril, G355R
Method: helical / : Inaoka D, Miyata T, Makino F, Ohtani Y, Ekari M, Kobayashi R, Imamura K, Sakamoto E, Kodama ST, Yoshida N, Kato T, Namba K, Tochio H, Sekiyama N

PDB-9kty:
Cryo-EM structure of the TIA-1 prion-like domain amyloid fibril, WT
Method: helical / : Inaoka D, Miyata T, Makino F, Ohtani Y, Ekari M, Kobayashi R, Imamura K, Sakamoto E, Kodama ST, Yoshida N, Kato T, Namba K, Tochio H, Sekiyama N

PDB-9ktz:
Cryo-EM structure of the TIA-1 prion-like domain amyloid fibril, G355R
Method: helical / : Inaoka D, Miyata T, Makino F, Ohtani Y, Ekari M, Kobayashi R, Imamura K, Sakamoto E, Kodama ST, Yoshida N, Kato T, Namba K, Tochio H, Sekiyama N

EMDB-65026:
PSI-LHCI of Euglena gracilis strain Z
Method: single particle / : Kato K, Nakajima Y, Shen JR, Nagao R

PDB-9vfj:
PSI-LHCI of Euglena gracilis strain Z
Method: single particle / : Kato K, Nakajima Y, Shen JR, Nagao R

EMDB-65631:
Subtomogram average of MJ1HA S-layer
Method: subtomogram averaging / : Goto-Ito S, Yamagata A, Lee Y, Ehara H, Ito T

EMDB-65632:
Subtomogram average of MJ1 attachment organelle
Method: subtomogram averaging / : Goto-Ito S, Yamagata A, Lee Y, Ehara H, Ito T

EMDB-71783:
Locally-refined structure of alpha2a adrenergic receptor in complex with Go heterotrimer, scFv16, and compound Z7149
Method: single particle / : Srinivasan K, Wu Y, Billesboelle C, Kim JY, Manglik A, Shoichet BK

EMDB-44945:
5HT2AR-miniGq heterotrimer in complex with a novel agonist obtained from large scale docking local map
Method: single particle / : Gumpper RH, Wang L, Kapolka N, Skiniotis G, Roth BL

EMDB-44946:
5HT2AR-miniGq heterotrimer in complex with a novel agonist obtained from large scale docking, local refinement of heterotrimer
Method: single particle / : Gumpper RH, Wang L, Kapolka N, Skiniotis G, Roth BL

EMDB-44961:
5HT2AR-miniGq heterotrimer in complex with a novel agonist obtained from large scale docking global map
Method: single particle / : Gumpper RH, Wang L, Kapolka N, Skiniotis G, Roth BL

EMDB-45616:
CryoEM Structure of HCA2 DREADD Gi1 in complex with FCH-2296413 (Local Refinement)
Method: single particle / : Krumm BE, Kang HJ, Diberto JF, Kapolka NJ, Gumpper RH, Olsen RHJ, Huang XP, Zhang S, Fay JF, Roth BL

PDB-9cib:
CryoEM Structure of HCA2 DREADD Gi1 in complex with FCH-2296413 (Local Refinement)
Method: single particle / : Krumm BE, Kang HJ, Diberto JF, Kapolka NJ, Gumpper RH, Olsen RHJ, Huang XP, Zhang S, Fay JF, Roth BL

EMDB-42538:
CryoEM Structure of HCA2-Gi1 in complex with MK-1903
Method: single particle / : Krumm BE, Kang HJ, Diberto JF, Kapolka NJ, Gumpper RH, Olsen RHJ, Huang XP, Zhang S, Fay JF, Roth BL

EMDB-42587:
CryoEM Structure of HCA2 DREADD Gi1 in complex with FCH-2296413
Method: single particle / : Krumm BE, Kang HJ, Diberto JF, Kapolka NJ, Gumpper RH, Olsen RHJ, Huang XP, Zhang S, Fay JF, Roth BL

PDB-8utd:
CryoEM Structure of HCA2-Gi1 in complex with MK-1903
Method: single particle / : Krumm BE, Kang HJ, Diberto JF, Kapolka NJ, Gumpper RH, Olsen RHJ, Huang XP, Zhang S, Fay JF, Roth BL

PDB-8uuj:
CryoEM Structure of HCA2 DREADD Gi1 in complex with FCH-2296413
Method: single particle / : Krumm BE, Kang HJ, Diberto JF, Kapolka NJ, Gumpper RH, Olsen RHJ, Huang XP, Zhang S, Fay JF, Roth BL

EMDB-42676:
5-HT2AR bound to Lisuride in complex with a mini-Gq protein and an active-state stabilizing single-chain variable fragment (scFv16) obtained by cryo-electron microscopy (cryoEM)
Method: single particle / : Barros-Alvarez X, Kim K, Panova O, Roth BL, Skiniotis G

EMDB-42999:
5HT2AR-miniGq heterotrimer in complex with a novel agonist obtained from large scale docking
Method: single particle / : Gumpper RH, Wang L, Kapolka N, Skiniotis G, Roth BL

PDB-8uwl:
5-HT2AR bound to Lisuride in complex with a mini-Gq protein and an active-state stabilizing single-chain variable fragment (scFv16) obtained by cryo-electron microscopy (cryoEM)
Method: single particle / : Barros-Alvarez X, Kim K, Panova O, Roth BL, Skiniotis G

PDB-8v6u:
5HT2AR-miniGq heterotrimer in complex with a novel agonist obtained from large scale docking
Method: single particle / : Gumpper RH, Wang L, Kapolka N, Skiniotis G, Roth BL

EMDB-15851:
Cryo-EM structure of cytochrome bd oxidase from C. glutamicum
Method: single particle / : Grund TN, Kusumoto T, Michel H, Sakamoto J, Safarian S

PDB-8b4o:
Cryo-EM structure of cytochrome bd oxidase from C. glutamicum
Method: single particle / : Grund TN, Kusumoto T, Michel H, Sakamoto J, Safarian S

EMDB-33707:
Apoferritin structure at 1.46 angstrom resolution by CryoARM300 equipped with Apollo
Method: single particle / : Bammes B, Spilman M, Sakamoto M, Fukumura T, Konyuba Y, Okunishi E

EMDB-14587:
Cryo-EM structure of the human GS-GN complex in the inhibited state
Method: single particle / : Marr L, Zeqiraj E

PDB-7zbn:
Cryo-EM structure of the human GS-GN complex in the inhibited state
Method: single particle / : Marr L, Zeqiraj E

EMDB-25791:
cryo-EM structure of MBP-KIX-apoferritin
Method: single particle / : Zhang K, Horikoshi N

EMDB-25799:
cryo-EM structure of MBP-KIX-apoferritin complex with peptide 7
Method: single particle / : Zhang K, Horikoshi N

PDB-7tb3:
cryo-EM structure of MBP-KIX-apoferritin
Method: single particle / : Zhang K, Horikoshi N, Li S, Powers A, Hameedi M, Pintilie G, Chae H, Khan Y, Suomivuori C, Dror R, Sakamoto K, Chiu W, Wakatsuki S

PDB-7tbh:
cryo-EM structure of MBP-KIX-apoferritin complex with peptide 7
Method: single particle / : Zhang K, Horikoshi N, Li S, Powers A, Hameedi M, Pintilie G, Chae H, Khan Y, Suomivuori C, Dror R, Sakamoto K, Chiu W, Wakatsuki S

EMDB-31472:
eIF2B-SFSV NSs
Method: single particle / : Kashiwagi K, Ito T

PDB-7f64:
eIF2B-SFSV NSs
Method: single particle / : Kashiwagi K, Ito T

EMDB-31474:
eIF2B-SFSV NSs-1-eIF2
Method: single particle / : Kashiwagi K, Ito T

EMDB-31475:
eIF2B-SFSV NSs-2-eIF2
Method: single particle / : Kashiwagi K, Ito T

EMDB-32023:
eIF2B-SFSV NSs C2-imposed
Method: single particle / : Kashiwagi K, Ito T

PDB-7f66:
eIF2B-SFSV NSs-1-eIF2
Method: single particle / : Kashiwagi K, Ito T

PDB-7f67:
eIF2B-SFSV NSs-2-eIF2
Method: single particle / : Kashiwagi K, Ito T

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