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Yorodumi Species
- Taxonomy data in EMDB/PDB/SASBDB -

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Search query

Name, Taxonomy-ID, or Keywords:

e.g. E. coli, ebola, influenza, cow, crab-eating macaque, spinach, peanut, cobra, pyrococcus

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Result of keyword search

Showing all 2 items for keyword: "Trichomonas vaginalis"

NameEMDBPDBSASBDB
Trichomonas vaginalis4430
Trichomonas vaginalis virus100

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Taxonomy info

NameTrichomonas vaginalis
Other names *1scientific name: Trichomonas vaginalis / synonym: Tritrichomonas vaginalis
Lineage *1cellular organisms > Eukaryota > Parabasalia > Trichomonadida > Trichomonadidae > Trichomonas
Yorodumi annotationeukaryote
References*1: NCBI Taxonomy
LinksNCBI taxonomy ID: 5722

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EMDB entries

Showing all 2 items

EMDB-6784:
Large subunit of Trichomonas vaginalis ribosome

EMDB-6788:
Small subunit of Trichomonas vaginalis ribosome

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PDB entries

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SASBDB entries

No item found

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About Yorodumi Species

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News

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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

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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

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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

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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)

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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

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Yorodumi Speices

Taxonomy data in EMDB/PDB/SASBDB

  • Taxonomy database of sample sources of data in EMDB/PDB/SASBDB

Related info.: EMDB / PDB / SASBDB / Comparison of 3 databanks

Read more