[English] 日本語
EMN search
- 3DEM data search -

-
Search query


Keywords
Database
Q: What is the data source of EM Navigator?
Latest entriesEMDB:
PDB:
Q: When the data are updated?
Author
Processing method
Display mode
Sort by
Displayentries / page
Entry
Article
Sample
Experiment
Processing

Yorodumi Search

-
Search result

Showing 1 - 50 of 1,896 items for database: PDB

PDB-5oh0:
The Cryo-Electron Microscopy Structure of the Type 1 Chaperone-Usher Pilus Rod

PDB-5oxe:
Structure of major capsid protein VP1 of Aeropyrum pernix bacilliform virus 1 APBV1

PDB-5vvr:
Ternary complex of RNA Pol II, transcription scaffold and Rad26

PDB-5vvs:
RNA pol II elongation complex

PDB-6anu:
Cryo-EM structure of F-actin complexed with the beta-III-spectrin actin-binding domain

PDB-6b3q:
Cryo-EM structure of human insulin degrading enzyme in complex with insulin

PDB-6bfu:
Glycan shield and fusion activation of a deltacoronavirus spike glycoprotein fine-tuned for enteric infections

PDB-6bjc:
TPX2_mini decorated GMPCPP-microtubule

PDB-6bll:
Cryo-EM structure of human CPSF-160-WDR33-CPSF-30-PAS RNA complex at 3.4 A resolution

PDB-6bly:
Cryo-EM structure of human CPSF-160-WDR33 complex at 3.36A resolution

PDB-6bm0:
Cryo-EM structure of human CPSF-160-WDR33 complex at 3.8 A resolution

PDB-6enf:
Cryo-EM structure of a polyproline-stalled ribosome in the absence of EF-P

PDB-6enj:
Polyproline-stalled ribosome in the presence of A+P site tRNA and elongation-factor P (EF-P)

PDB-6enu:
Polyproline-stalled ribosome in the presence of elongation-factor P (EF-P)

PDB-5n9y:
The full-length structure of ZntB

PDB-5opt:
Structure of KSRP in context of Trypanosoma cruzi 40S

PDB-5osg:
Structure of KSRP in context of Leishmania donovani 80S

PDB-5uz5:
S. cerevisiae U1 snRNP

PDB-5w68:
Type II secretin from Enteropathogenic Escherichia coli - GspD

PDB-5y6p:
Structure of the phycobilisome from the red alga Griffithsia pacifica

PDB-5ye5:
structure of endo-lysosomal TRPML1 channel inserting into nanodisc

PDB-6az0:
Mitochondrial ATPase Protease YME1

PDB-6b5b:
Cryo-EM structure of the NAIP5-NLRC4-flagellin inflammasome

PDB-6b6h:
The cryo-EM structure of a bacterial class I transcription activation complex

PDB-6b9q:
Single particle cryo-EM structure determination of the LuIII capsid protein

PDB-6eoj:
PolyA polymerase module of the cleavage and polyadenylation factor (CPF) from Saccharomyces cerevisiae

PDB-6aye:
Human apo-TRPML3 channel at pH 7.4

PDB-6ayf:
TRPML3/ML-SA1 complex at pH 7.4

PDB-6ayg:
Human Apo-TRPML3 channel at pH 4.8

PDB-6b2z:
Cryo-EM structure of the dimeric FO region of yeast mitochondrial ATP synthase

PDB-6b43:
CryoEM structure and atomic model of the Kaposi's sarcoma-associated herpesvirus capsid

PDB-6b7y:
Cryo-EM structure of human insulin degrading enzyme

PDB-6ehl:
Model of the Ebola virus nucleoprotein in recombinant nucleocapsid-like assemblies

PDB-6ehm:
Model of the Ebola virus nucleocapsid subunit from recombinant virus-like particles

PDB-5n5n:
Cryo-EM structure of tsA201 cell alpha1B and betaI and betaIVb microtubules

PDB-5vt0:
Escherichia coli 6S RNA derivative in complex with Escherichia coli RNA polymerase sigma70-holoenzyme

PDB-5ydt:
Remodeled Utp30 in 90S pre-ribosome (Mtr4-depleted, Enp1-TAP)

PDB-6avq:
The Therapeutic Antibody LM609 Selectively Inhibits Ligand Binding to Human alpha-V beta-3 Integrin via Steric Hindrance

PDB-6avr:
Human alpha-V beta-3 Integrin (intermediate conformation) in complex with the therapeutic antibody LM609

PDB-6avu:
Human alpha-V beta-3 Integrin (open conformation) in complex with the therapeutic antibody LM609

PDB-6baa:
Cryo-EM structure of the pancreatic beta-cell KATP channel bound to ATP and glibenclamide

PDB-5bk4:
Cryo-EM structure of Mcm2-7 double hexamer on dsDNA

PDB-5oam:
Molecular basis of human kinesin-8 function and inhibition

PDB-5ocu:
Molecular basis of human kinesin-8 function and inhibition

PDB-5ogc:
Molecular basis of human kinesin-8 function and inhibition

PDB-5wda:
Structure of the PulG pseudopilus

PDB-5wjt:
Cryo-EM structure of B. subtilis flagellar filaments N226Y

PDB-5wju:
Cryo-EM structure of B. subtilis flagellar filaments A39V, N133H

PDB-5wjv:
Cryo-EM structure of B. subtilis flagellar filaments A233V

PDB-5wjw:
Cryo-EM structure of B. subtilis flagellar filaments H84R

Pages:

+
About EMN search

-
News

-
Oct 4, 2017. Three pioneers of this field were awarded Nobel Prize in Chemistry 2017

Three pioneers of this field were awarded Nobel Prize in Chemistry 2017

  • Jacques Dubochet (University of Lausanne, Switzerland) is a pioneer of ice-embedding method of EM specimen (as known as cryo-EM), Most of 3DEM structures in EMDB and PDB are obtained using his method.
  • Joachim Frank (Columbia University, New York, USA) is a pioneer of single particle reconstruction, which is the most used reconstruction method for 3DEM structures in EMDB and EM entries in PDB. And also, he is a develper of Spider, which is one of the most famous software in this field, and is used for some EM Navigor data (e.g. map projection/slice images).
  • Richard Henderson (MRC Laboratory of Molecular Biology, Cambridge, UK) was determined the first biomolecule structure by EM. The first EM entry in PDB, PDB-1brd is determinedby him.

External links: The 2017 Nobel Prize in Chemistry - Press Release

-
Jul 12, 2017. Major update of PDB

Major update of PDB

  • wwPDB released updated PDB data conforming to the new PDBx/mmCIF dictionary. This is a major update changing the version number from 4 to 5, and with Remediation, in which all the entries are updated. See below links for details.
  • In this update, many items about electron microscopy experimental information are reorganized (e.g. em_software). Now, EM Navigator and Yorodumi are based on the updated data.

External links: wwPDB Remediation / Enriched Model Files Conforming to OneDep Data Standards Now Available in the PDB FTP Archive

+
Jun 16, 2017. Omokage search with filter

Omokage search with filter

  • Result of Omokage search can be filtered by keywords and the database types

Related info.: Omokage search

+
Sep 15, 2016. EM Navigator & Yorodumi renewed

EM Navigator & Yorodumi renewed

  • New versions of EM Navigator and Yorodumi started

Related info.: Changes in new EM Navigator and Yorodumi / EM Navigator (legacy version) / Yorodumi (legacy version)

+
Aug 31, 2016. New EM Navigator & Yorodumi

New EM Navigator & Yorodumi

  • In 15th Sep 2016, the development versions of EM Navigator and Yorodumi will replace the official versions.
  • Current version will continue as 'legacy version' for some time.

Related info.: Changes in new EM Navigator and Yorodumi / EM Navigator / Yorodumi / EM Navigator (legacy version) / Yorodumi (legacy version)

Read more

-
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 is the data source of EM Navigator? / Yorodumi Search

Read more