[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 55 items for (author: dai & jb)

EMDB-43718:
NU-refined consensus map of CXCL1-KSHV ORF74-Gi-scFv16 Complex
Method: single particle / : Sahoo B, Seo HD, Dai X, Jung J

EMDB-48095:
3DFlex refined map of CXCL1-KSHV ORF74-Gi-scFv16 Complex
Method: single particle / : Sahoo B, Seo HD, Dai X, Jung J

EMDB-48097:
Local refined cryoEM map of CXCL1-KSHV ORF74 region
Method: single particle / : Sahoo B, Seo HD, Dai X, Jung J

EMDB-48100:
Cryo-EM Structure of CXCL1-KSHV ORF74-Gi-scFv16 Complex
Method: single particle / : Sahoo B, Seo HD, Dai X, Jung J

EMDB-43717:
Cryo-EM Structure of KSHV ORF74 Apo Dimer at 2.8A
Method: single particle / : Sahoo B, Seo HD, Dai X, Jung J

EMDB-43720:
Cryo-EM Map of KSHV ORF74-BRIL-BAK5-Nb complex at 3.7A
Method: single particle / : Sahoo B, Seo HD, Dai X, Jung J

EMDB-29530:
SARS-CoV-2 XBB.1 spike RBD bound to the human ACE2 ectodomain and the S309 neutralizing antibody Fab fragment
Method: single particle / : Park YJ, Seattle Structural Genomics Center for Infectious Disease (SSGCID), Veesler D

EMDB-29531:
SARS-CoV-2 BQ.1.1 spike RBD bound to the human ACE2 ectodomain and the S309 neutralizing antibody Fab fragment
Method: single particle / : Park YJ, Seattle Structural Genomics Center for Infectious Disease (SSGCID), Veesler D

EMDB-40240:
SARS-CoV-2 BN.1 spike RBD bound to the human ACE2 ectodomain and the S309 neutralizing antibody Fab fragment
Method: single particle / : Park YJ, Seattle Structural Genomics Center for Infectious Disease (SSGCID), Veesler D

EMDB-26676:
Three RBD-down state of SARS-CoV-2 D614G spike in complex with the SP1-77 neutralizing antibody Fab fragment
Method: single particle / : Zhang J, Luo S, Kreutzberger A, Kirchhausen T, Chen B, Haynes B, Alt F

EMDB-26677:
Three RBD-down state of SARS-CoV-2 D614G spike in complex with the SP1-77 neutralizing antibody Fab fragment (local refinement of the RBD and Fab variable domains)
Method: single particle / : Zhang J, Luo S, Kreutzberger A, Kirchhausen T, Chen B, Haynes B, Alt F

EMDB-26678:
An antibody from single human VH-rearranging mouse neutralizes all SARS-CoV-2 variants through BA.5 by inhibiting membrane fusion
Method: single particle / : Zhang J, Luo S, Kreutzberger A, Kirchhausen T, Chen B, Haynes B, Alt F

EMDB-27043:
Negative stain electron microscopy single particle reconstruction of monoclonal antibody SP1-77 Fab in complex with SARS-CoV2 2P spike
Method: single particle / : Edwards RJ, Mansouri K

EMDB-27044:
Negative stain electron microscopy single particle reconstruction of monoclonal antibody VHH7-7-53 Fab in complex with SARS-CoV2 2P spike
Method: single particle / : Edwards RJ, Mansouri K

EMDB-27046:
Negative stain electron microscopy single particle reconstruction of monoclonal antibody VHH7-5-82 Fab in complex with SARS-CoV2 2P spike
Method: single particle / : Edwards RJ, Mansouri K

EMDB-22378:
Herpes Simplex Virus Type 1 Procapsid with Portal Vertex
Method: subtomogram averaging / : Buch MHC, Heymann JB, Newcomb WW, Winkler DC, Steven AC

EMDB-22379:
Herpes Simplex Virus Type 1 A-capsid with Portal Vertex
Method: subtomogram averaging / : Buch MHC, Heymann JB, Newcomb WW, Winkler DC, Steven AC

EMDB-22925:
cryo-EM structure of SARS-CoV-2 spike in complex with Fab 15033-7, two RBDs bound
Method: single particle / : Li Z, Rini JM

EMDB-22926:
cryo-EM structure of SARS-CoV-2 spike in complex with Fab 15033-7, three RBDs bound
Method: single particle / : Li Z, Rini JM

EMDB-23064:
SARS-CoV-2 spike protein in complex with Fab 15033-7, 3-"up", asymmetric
Method: single particle / : Li Z, Rini J

EMDB-23065:
SARS-CoV-2 spike protein in complex with Fab 15033-7, 2-"up"-1-"down" conformation
Method: single particle / : Li Z, Rini J

EMDB-22331:
SPN3US phage empty capsid
Method: single particle / : Heymann JB, Wang B, Newcomb WW, Wu W, Winkler DC, Cheng N, Reilly ER, Hsia RC, Thomas JA, Steven AC

EMDB-22332:
Phage SPN3US mottled capsid (glutaraldehyde-fixed)
Method: single particle / : Heymann JB, Wang B, Newcomb WW, Wu W, Winkler DC, Cheng N, Reilly ER, Hsia RC, Thomas JA, Steven AC

EMDB-22333:
SPN3US phage mottled capsid
Method: single particle / : Heymann JB, Wang B, Newcomb WW, Wu W, Winkler DC, Cheng N, Reilly ER, Hsia RC, Thomas JA, Steven AC

EMDB-22078:
Characterization of the SARS-CoV-2 S Protein: Biophysical, Biochemical, Structural, and Antigenic Analysis
Method: single particle / : Herrera NG, Morano NC

EMDB-7907:
Two retinoschisin molecules interacting laterally forming a unit cell of a filamentous strand.
Method: single particle / : Heymann JB, Vijayasarathy C, Huang RK, Dearborn AD, Sieving PA, Steven AC

EMDB-8607:
Herpes Simplex Virion Primary Enveloped Virion
Method: single particle / : Fontana J, Newcomb WW, Winkler DC, Cheng N, Heymann JB, Steven AC

EMDB-6439:
Helical cryo-EM reconstruction of HIV Rev filament
Method: helical / : DiMattia MA, Watts NR, Cheng N, Huang R, Heymann JB, Wingfield PT, Grimes JM, Stuart DI, Steven AC

EMDB-3367:
Cryo-EM structure of yeast cytoplasmic exosome
Method: single particle / : Liu JJ, Niu CY, Wu Y, Tan D, Wang Y, Ye MD, Liu Y, Zhao WW, Zhou K, Liu QS, Dai JB, Yang XR, Dong MQ, Huang N, Wang HW

EMDB-3368:
Cryo-EM structure of yeast cytoplasmic exosome
Method: single particle / : Liu JJ, Niu CY, Wu Y, Tan D, Wang Y, Ye MD, Liu Y, Zhao WW, Zhou K, Liu QS, Dai JB, Yang XR, Dong MQ, Huang N, Wang HW

EMDB-3369:
Cryo-EM structure of yeast cytoplasmic exosome
Method: single particle / : Liu JJ, Niu CY, Wu Y, Tan D, Wang Y, Ye MD, Liu Y, Zhao WW, Zhou K, Liu QS, Dai JB, Yang XR, Dong MQ, Huang N, Wang HW

EMDB-3370:
Cryo-EM structure of yeast cytoplasmic exosome
Method: single particle / : Liu JJ, Niu CY, Wu Y, Tan D, Wang Y, Ye MD, Liu Y, Zhao WW, Zhou K, Liu QS, Dai JB, Yang XR, Dong MQ, Huang N, Wang HW

EMDB-3371:
Cryo-EM structure of yeast cytoplasmic exosome
Method: single particle / : Liu JJ, Niu CY, Wu Y, Tan D, Wang Y, Ye MD, Liu Y, Zhao WW, Zhou K, Liu QS, Dai JB, Yang XR, Dong MQ, Huang N, Wang HW

EMDB-3372:
Cryo-EM structure of yeast cytoplasmic exosome
Method: single particle / : Liu JJ, Niu CY, Wu Y, Tan D, Wang Y, Ye MD, Liu Y, Zhao WW, Zhou K, Liu QS, Dai JB, Yang XR, Dong MQ, Huang N, Wang HW

EMDB-3366:
Cryo-EM structure of yeast cytoplasmic exosome
Method: single particle / : Liu JJ, Niu CY, Wu Y, Tan D, Wang Y, Ye MD, Liu Y, Zhao WW, Zhou K, Liu QS, Dai JB, Yang XR, Dong MQ, Huang N, Wang HW

EMDB-6425:
Retinoschisin, back-to-back octameric rings
Method: single particle / : Heymann JB, Tolun G, Vijayasarathy C, Huang R, Zeng Y, Li Y, Steven AC, Sieving PA

EMDB-6482:
Cryo-electron microscopy of alpha Synuclein amyloid fibrils
Method: helical / : Dearborn AD, Wall JS, Cheng N, Heymann JB, Kajava AV, Varkey J, Langen R, Steven AC

EMDB-5917:
Encapsulin protein (EncA) from Myxococcus xanthus
Method: single particle / : McHugh CA, Fontana J, Lam AS, Cheng N, Aksyuk AA, Steven AC, Hoiczyk E

EMDB-5953:
Cryo-electron microscopy of iron-core lacking encapsulin nanocompartments from Myxococcus xanthus
Method: single particle / : McHugh CA, Fontana J, Nemecek D, Cheng N, Aksyuk AA, Heymann JB, Winkler DC, Lam AS, Wall JS, Steven AC, Hoiczyk E

EMDB-5772:
A Two-Pronged Structural Analysis of Retroviral Maturation Indicates that Core Formation Proceeds by a Disassembly-Reassembly Pathway Rather than a Displacive Transition
Method: single particle / : Keller PW, Huang RK, England M, Waki K, Cheng N, Heymann JB, Craven RC, Freed EO, Steven AC

EMDB-5773:
A Two-Pronged Structural Analysis of Retroviral Maturation Indicates that Core Formation Proceeds by a Disassembly-Reassembly Pathway Rather than a Displacive Transition
Method: single particle / : Keller PW, Huang RK, England M, Waki K, Cheng N, Heymann JB, Craven RC, Freed EO, Steven AC

EMDB-5774:
A Two-Pronged Structural Analysis of Retroviral Maturation Indicates that Core Formation Proceeds by a Disassembly-Reassembly Pathway Rather than a Displacive Transition
Method: single particle / : Keller PW, Huang RK, England M, Waki K, Cheng N, Heymann JB, Craven RC, Freed EO, Steven AC

EMDB-2364:
CryoEM reconstruction of the bacteriophage phi6 procapsid to the near-atomic resolution
Method: single particle / : Nemecek D, Boura E, Wu W, Cheng N, Plevka P, Qiao J, Mindich L, Heymann JB, Hurley JH, Steven AC

EMDB-2341:
Bacteriophage phi6 procapsids with different composition of accessory proteins
Method: single particle / : Nemecek D, Qiao J, Mindich L, Steven AC, Heymann JB

EMDB-2342:
Bacteriophage phi6 procapsids with different composition of accessory proteins
Method: single particle / : Nemecek D, Qiao J, Mindich L, Steven AC, Heymann JB

EMDB-2344:
Bacteriophage phi6 procapsids with different composition of accessory proteins
Method: single particle / : Nemecek D, Qiao J, Mindich L, Steven AC, Heymann JB

EMDB-2346:
Bacteriophage phi6 procapsids with different composition of accessory proteins
Method: single particle / : Nemecek D, Qiao J, Mindich L, Steven AC, Heymann JB

EMDB-5355:
Expansion Intermediates of the Bacteriophage phi6 Procapsid
Method: single particle / : Nemecek D, Cheng N, Qiao J, Mindich L, Steven AC, Heymann JB

EMDB-5356:
Expansion Intermediates of the Bacteriophage phi6 Procapsid
Method: single particle / : Nemecek D, Cheng N, Qiao J, Mindich L, Steven AC, Heymann JB

EMDB-5357:
Expansion Intermediates of the Bacteriophage phi6 Procapsid
Method: single particle / : Nemecek D, Cheng N, Qiao J, Mindich L, Steven AC, Heymann JB

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