[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

TitleStructural basis of transcription-translation coupling and collision in bacteria.
Journal, issue, pagesScience, Vol. 369, Issue 6509, Page 1355-1359, Year 2020
Publish dateSep 11, 2020
AuthorsMichael William Webster / Maria Takacs / Chengjin Zhu / Vita Vidmar / Ayesha Eduljee / Mo'men Abdelkareem / Albert Weixlbaumer /
PubMed AbstractProkaryotic messenger RNAs (mRNAs) are translated as they are transcribed. The lead ribosome potentially contacts RNA polymerase (RNAP) and forms a supramolecular complex known as the expressome. The ...Prokaryotic messenger RNAs (mRNAs) are translated as they are transcribed. The lead ribosome potentially contacts RNA polymerase (RNAP) and forms a supramolecular complex known as the expressome. The basis of expressome assembly and its consequences for transcription and translation are poorly understood. Here, we present a series of structures representing uncoupled, coupled, and collided expressome states determined by cryo-electron microscopy. A bridge between the ribosome and RNAP can be formed by the transcription factor NusG, which stabilizes an otherwise-variable interaction interface. Shortening of the intervening mRNA causes a substantial rearrangement that aligns the ribosome entrance channel to the RNAP exit channel. In this collided complex, NusG linkage is no longer possible. These structures reveal mechanisms of coordination between transcription and translation and provide a framework for future study.
External linksScience / PubMed:32820062
MethodsEM (single particle)
Resolution3.0 - 3.9 Å
Structure data

11418

6ztj

EMDB-11418, PDB-6ztj:
E. coli 70S-RNAP expressome complex in NusG-coupled state (38 nt intervening mRNA)
Method: EM (single particle) / Resolution: 3.4 Å

11419

6ztl

EMDB-11419, PDB-6ztl:
E. coli 70S-RNAP expressome complex in collided state bound to NusG
Method: EM (single particle) / Resolution: 3.5 Å

11420

6ztm

EMDB-11420, PDB-6ztm:
E. coli 70S-RNAP expressome complex in collided state without NusG
Method: EM (single particle) / Resolution: 3.3 Å

11421

6ztn

EMDB-11421, PDB-6ztn:
E. coli 70S-RNAP expressome complex in NusG-coupled state (42 nt intervening mRNA)
Method: EM (single particle) / Resolution: 3.9 Å

11422

6zto

EMDB-11422, PDB-6zto:
E. coli 70S-RNAP expressome complex in uncoupled state 1
Method: EM (single particle) / Resolution: 3.0 Å

11423

6ztp

EMDB-11423, PDB-6ztp:
E. coli 70S-RNAP expressome complex in uncoupled state 6
Method: EM (single particle) / Resolution: 3.0 Å

11426

6zu1

EMDB-11426: Uncoupled E. coli expressome, state 2
PDB-6zu1: E. coli 70S-RNAP expressome complex in uncoupled state 2
Method: EM (single particle) / Resolution: 3.0 Å

Chemicals

ChemComp-MG:
Unknown entry

ChemComp-PHE:
PHENYLALANINE / Phenylalanine

ChemComp-ZN:
Unknown entry

Source
  • escherichia coli (E. coli)
  • synthetic construct (others)
KeywordsGENE REGULATION / Transcription / Translation / Expressome / Ribosome / RNA polymerase

+
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