[English] 日本語
Yorodumi Papers
- Database of articles cited by EMDB/PDB/SASBDB data -

+
Search query

Keywords
Structure methods
Author
Journal
IF

-
Structure paper

TitleStructure and Function of a Bacterial Gap Junction Analog.
Journal, issue, pagesCell, Vol. 178, Issue 2, Page 374-384.e15, Year 2019
Publish dateJul 11, 2019
AuthorsGregor L Weiss / Ann-Katrin Kieninger / Iris Maldener / Karl Forchhammer / Martin Pilhofer /
PubMed AbstractMulticellular lifestyle requires cell-cell connections. In multicellular cyanobacteria, septal junctions enable molecular exchange between sister cells and are required for cellular differentiation. ...Multicellular lifestyle requires cell-cell connections. In multicellular cyanobacteria, septal junctions enable molecular exchange between sister cells and are required for cellular differentiation. The structure of septal junctions is poorly understood, and it is unknown whether they are capable of controlling intercellular communication. Here, we resolved the in situ architecture of septal junctions by electron cryotomography of cryo-focused ion beam-milled cyanobacterial filaments. Septal junctions consisted of a tube traversing the septal peptidoglycan. Each tube end comprised a FraD-containing plug, which was covered by a cytoplasmic cap. Fluorescence recovery after photobleaching showed that intercellular communication was blocked upon stress. Gating was accompanied by a reversible conformational change of the septal junction cap. We provide the mechanistic framework for a cell junction that predates eukaryotic gap junctions by a billion years. The conservation of a gated dynamic mechanism across different domains of life emphasizes the importance of controlling molecular exchange in multicellular organisms.
External linksCell / PubMed:31299201 / PubMed Central
MethodsEM (tomography) / EM (subtomogram averaging)
Resolution25.0 - 35.0 Å
Structure data

EMDB-4949:
Electron cryotomogram of septal region from FIB milled Anabaena sp. PCC7120 wild type filament
Method: EM (tomography)

EMDB-4950:
Electron cryotomogram of septal region from FIB milled Anabaena sp. PCC7120 gfp-fraD expressing filament
Method: EM (tomography)

EMDB-4951:
Electron cryotomogram of septal region from FIB milled Anabaena sp. PCC7120 SjcF1 mutant filament
Method: EM (tomography)

EMDB-4952:
Electron cryotomogram of septal region from FIB milled Anabaena sp. PCC7120 SepJ mutant filament
Method: EM (tomography)

EMDB-4953:
Electron cryotomogram of septal region from FIB milled Anabaena sp. PCC7120 FraD mutant filament
Method: EM (tomography)

EMDB-4954:
Electron cryotomogram of septal region from FIB milled Anabaena sp. PCC7120 FraC/FraD mutant filament
Method: EM (tomography)

EMDB-4955:
Electron cryotomogram of septal region from FIB milled Anabaena sp. PCC7120 FraC mutant filament
Method: EM (tomography)

EMDB-4956:
Electron cryotomogram of septal region from FIB milled Anabaena sp. PCC7120 AmiC1 mutant filament
Method: EM (tomography)

EMDB-4957:
Electron cryotomogram of septal region from FIB milled Anabaena sp. PCC7120 wild type filament after CCCP treatment
Method: EM (tomography)

EMDB-4961:
Subtomogram average of septal junctions from Anabaena sp. PCC7120 after 45s CCCP treatment
Method: EM (subtomogram averaging) / Resolution: 35.0 Å

EMDB-4962:
Subtomogram average of septal junctions from Anabaena sp. PCC7120 in the closed state after CCCP treatment
Method: EM (subtomogram averaging) / Resolution: 28.0 Å

EMDB-4963:
Subtomogram average of septal junctions from Anabaena sp. PCC7120 in the open state after washing out CCCP
Method: EM (subtomogram averaging) / Resolution: 35.0 Å

EMDB-4964:
Subtomogram average of septal junctions from Anabaena sp. PCC7120 AmiC1 mutant
Method: EM (subtomogram averaging) / Resolution: 35.0 Å

EMDB-4965:
Subtomogram average of septal junctions from Anabaena sp. PCC7120 SepJ mutant
Method: EM (subtomogram averaging) / Resolution: 35.0 Å

EMDB-4966:
Subtomogram average of septal junctions from Anabaena sp. PCC7120 SjcF1 mutant
Method: EM (subtomogram averaging) / Resolution: 35.0 Å

EMDB-4967:
Subtomogram average of septal junctions from Anabaena sp. PCC7120 gfp-fraD expressing mutant
Method: EM (subtomogram averaging) / Resolution: 28.0 Å

EMDB-4968:
Subtomogram average of septal junctions from Anabaena sp. PCC7120 after 24h in the dark
Method: EM (subtomogram averaging) / Resolution: 35.0 Å

EMDB-4969:
Subtomogram average of septal junctions from Anabaena sp. PCC7120 in the open state
Method: EM (subtomogram averaging) / Resolution: 25.0 Å

Source
  • Nostoc sp. PCC 7120 (bacteria)

+
About Yorodumi Papers

-
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

-
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

+
Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)

EMDB accession codes are about to change! (news from PDBe EMDB page)

  • The allocation of 4 digits for EMDB accession codes will soon come to an end. Whilst these codes will remain in use, new EMDB accession codes will include an additional digit and will expand incrementally as the available range of codes is exhausted. The current 4-digit format prefixed with “EMD-” (i.e. EMD-XXXX) will advance to a 5-digit format (i.e. EMD-XXXXX), and so on. It is currently estimated that the 4-digit codes will be depleted around Spring 2019, at which point the 5-digit format will come into force.
  • The EM Navigator/Yorodumi systems omit the EMD- prefix.

Related info.:Q: What is EMD? / ID/Accession-code notation in Yorodumi/EM Navigator

External links:EMDB Accession Codes are Changing Soon! / Contact to PDBj

+
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.
  • 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

-
Yorodumi Papers

Database of articles cited by EMDB/PDB/SASBDB data

  • Database of articles cited by EMDB, PDB, and SASBDB entries
  • Using PubMed data

Related info.:EMDB / PDB / SASBDB / Yorodumi / EMN Papers / Changes in new EM Navigator and Yorodumi

Read more