[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

TitleIn situ architecture of Opa1-dependent mitochondrial cristae remodeling.
Journal, issue, pagesEMBO J, Vol. 43, Issue 3, Page 391-413, Year 2024
Publish dateJan 15, 2024
AuthorsMichelle Y Fry / Paula P Navarro / Pusparanee Hakim / Virly Y Ananda / Xingping Qin / Juan C Landoni / Sneha Rath / Zintis Inde / Camila Makhlouta Lugo / Bridget E Luce / Yifan Ge / Julie L McDonald / Ilzat Ali / Leillani L Ha / Benjamin P Kleinstiver / David C Chan / Kristopher A Sarosiek / Luke H Chao /
PubMed AbstractCristae membrane state plays a central role in regulating mitochondrial function and cellular metabolism. The protein Optic atrophy 1 (Opa1) is an important crista remodeler that exists as two forms ...Cristae membrane state plays a central role in regulating mitochondrial function and cellular metabolism. The protein Optic atrophy 1 (Opa1) is an important crista remodeler that exists as two forms in the mitochondrion, a membrane-anchored long form (l-Opa1) and a processed short form (s-Opa1). The mechanisms for how Opa1 influences cristae shape have remained unclear due to lack of native three-dimensional views of cristae. We perform in situ cryo-electron tomography of cryo-focused ion beam milled mouse embryonic fibroblasts with defined Opa1 states to understand how each form of Opa1 influences cristae architecture. In our tomograms, we observe a variety of cristae shapes with distinct trends dependent on s-Opa1:l-Opa1 balance. Increased l-Opa1 levels promote cristae stacking and elongated mitochondria, while increased s-Opa1 levels correlated with irregular cristae packing and round mitochondria shape. Functional assays indicate a role for l-Opa1 in wild-type apoptotic and calcium handling responses, and show a compromised respiratory function under Opa1 imbalance. In summary, we provide three-dimensional visualization of cristae architecture to reveal relationships between mitochondrial ultrastructure and cellular function dependent on Opa1-mediated membrane remodeling.
External linksEMBO J / PubMed:38225406 / PubMed Central
MethodsEM (tomography)
Structure data

EMDB-43049: Cryo-electron tomogram of mitochondria from cryo-FIB milled l-Opa1* mouse embryonic fibroblasts
Method: EM (tomography)

EMDB-43050: cryo-electron tomogram of mitochondria in cryo-FIB milled l-Opa1* mouse embryonic fibroblasts
Method: EM (tomography)

EMDB-43051: cryo-electron tomogram of mitochondria in cryo-FIB milled l-Opa1* mouse embryonic fibroblasts
Method: EM (tomography)

EMDB-43052: cryo-electron tomogram of mitochondria in cryo-FIB milled l-Opa1* mouse embryonic fibroblasts
Method: EM (tomography)

EMDB-43053: Cryo-electron tomogram of mitochondria in cryo-FIB milled s-Opa1* mouse embryonic fibroblasts
Method: EM (tomography)

EMDB-43054: cryo-electron tomogram of mitochondria in cryo-FIB milled s-Opa1* mouse embryonic fibroblasts
Method: EM (tomography)

EMDB-43055: cryo-electron tomogram of mitochondria in cryo-FIB milled s-Opa1* mouse embryonic fibroblasts
Method: EM (tomography)

EMDB-43056: cryo-electron tomogram of mitochondria in cryo-FIB milled s-Opa1* mouse embryonic fibroblasts
Method: EM (tomography)

EMDB-43057: Cryo-electron tomogram of mitochondria in cryo-FIB milled s-Opa1* mouse embryonic fibroblasts
Method: EM (tomography)

EMDB-43058: Cryo-electron tomogram of mitochondria in cryo-FIB milled mouse embryonic fibroblasts with OPA1 deletion
Method: EM (tomography)

EMDB-43059: Cryo-electron tomogram of mitochondria in cryo-FIB milled mouse embryonic fibroblasts with OPA1 deletion
Method: EM (tomography)

EMDB-43060: Cryo-electron tomogram of mitochondria in cryo-FIB milled mouse embryonic fibroblasts with OPA1 deletion
Method: EM (tomography)

EMDB-43061: Cryo-electron tomogram of mitochondria in cryo-FIB milled mouse embryonic fibroblasts with OPA1 deletion
Method: EM (tomography)

EMDB-43062: Cryo-electron tomogram of mitochondria in cryo-FIB milled mouse embryonic fibroblasts with OPA1 deletion
Method: EM (tomography)

EMDB-43063: Cryo-electron tomogram of mitochondria in cryo-FIB milled mouse embryonic fibroblasts
Method: EM (tomography)

EMDB-43064: Cryo-electron tomogram of mitochondria in cryo-FIB milled mouse embryonic fibroblasts
Method: EM (tomography)

EMDB-43065: Cryo-electron tomogram of mitochondria in cryo-FIB milled mouse embryonic fibroblasts
Method: EM (tomography)

EMDB-43066: Cryo-electron tomogram of mitochondria in cryo-FIB milled mouse embryonic fibroblasts
Method: EM (tomography)

EMDB-43067: Cryo-electron tomogram of mitochondria in cryo-FIB milled mouse embryonic fibroblasts with overexpression of OPA1
Method: EM (tomography)

EMDB-43068: Cryo-electron tomogram of mitochondria in cryo-FIB milled mouse embryonic fibroblasts with overexpression of OPA1
Method: EM (tomography)

EMDB-43069: Cryo-electron tomogram of mitochondria in cryo-FIB milled mouse embryonic fibroblasts with overexpression of OPA1
Method: EM (tomography)

EMDB-43070: Cryo-electron tomogram of mitochondria in cryo-FIB milled mouse embryonic fibroblasts with overexpression of OPA1
Method: EM (tomography)

Source
  • Mus musculus (house mouse)

+
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