[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

TitleMolecular insights into the regulation of constitutive activity by RNA editing of 5HT serotonin receptors.
Journal, issue, pagesCell Rep, Vol. 40, Issue 7, Page 111211, Year 2022
Publish dateAug 16, 2022
AuthorsRyan H Gumpper / Jonathan F Fay / Bryan L Roth /
PubMed AbstractRNA editing is a process by which post-transcriptional changes of mRNA nucleotides alter protein function through modification of the amino acid content. The 5HT serotonin receptor, which undergoes ...RNA editing is a process by which post-transcriptional changes of mRNA nucleotides alter protein function through modification of the amino acid content. The 5HT serotonin receptor, which undergoes 32 distinct RNA-editing events leading to 24 protein isoforms, is a notable example of this process. These 5HT isoforms display differences in constitutive activity, agonist/inverse agonist potencies, and efficacies. To elucidate the molecular mechanisms responsible for these effects of RNA editing, we present four active-state 5HT-transducer-coupled structures of three representative isoforms (INI, VGV, and VSV) with the selective drug lorcaserin (Belviq) and the classic psychedelic psilocin. We also provide a comprehensive analysis of agonist activation and constitutive activity across all 24 protein isoforms. Collectively, these findings reveal a unique hydrogen-bonding network located on intracellular loop 2 that is subject to RNA editing, which differentially affects GPCR constitutive and agonist signaling activities.
External linksCell Rep / PubMed:35977511 / PubMed Central
MethodsEM (single particle)
Resolution2.84 - 3.6 Å
Structure data

EMDB-27633, PDB-8dpf:
Cryo-EM structure of the 5HT2C receptor (INI isoform) bound to lorcaserin
Method: EM (single particle) / Resolution: 2.84 Å

EMDB-27634, PDB-8dpg:
Cryo-EM structure of the 5HT2C receptor (INI isoform) bound to psilocin
Method: EM (single particle) / Resolution: 3.6 Å

EMDB-27635, PDB-8dph:
Cryo-EM structure of the 5HT2C receptor (VGV isoform) bound to lorcaserin
Method: EM (single particle) / Resolution: 3.2 Å

EMDB-27636, PDB-8dpi:
Cryo-EM structure of the 5HT2C receptor (VSV isoform) bound to lorcaserin
Method: EM (single particle) / Resolution: 3.4 Å

Chemicals

ChemComp-T4U:
(1R)-8-chloro-1-methyl-2,3,4,5-tetrahydro-1H-3-benzazepine / Lorcaserin

ChemComp-CLR:
CHOLESTEROL / Cholesterol

ChemComp-91Q:
3-[2-(dimethylamino)ethyl]-1~{H}-indol-4-ol / alkaloid*YM / Psilocin

Source
  • homo sapiens (human)
KeywordsMEMBRANE PROTEIN / GPCR

+
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