9G4I | pdb_00009g4i

Group II intron assembly intermediate Domain 1 and 2 "Partly open" state

• PDB DOI: https://doi.org/10.2210/pdb9G4I/pdb
• NAKB: 9G4I
• EM Map EMD-51040: EMDB EMDataResource

• Classification: RNA
• Organism(s): Oceanobacillus iheyensis
• Mutation(s): No 


• Deposited: 2024-07-15 Released: 2025-11-05 
• Deposition Author(s): Jadhav, S.S., Marcia, M.
• Funding Organization(s): Region Auvergne Rhone Alpes, Fondation ARC, Institut National du Cancer (inCA), Other government, Agence Nationale de la Recherche (ANR)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 4.61 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental

Literature

Sequential assembly of the catalytic structure of a large multidomain RNA visualized by cryo-electron microscopy

Jadhav, S.S., Maiorca, M., Mulvaney, T., Topf, M., Marcia, M.

To be published.

Biological Assembly 1  

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 96.13 kDa 
• Atom Count: 5,845 
• Modeled Residue Count: 273 
• Deposited Residue Count: 296 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
GROUP IIC INTRON	A	296	Oceanobacillus iheyensis

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 4.61 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC
MODEL REFINEMENT	ERRASER	3.0

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-11-05 
Deposition Author(s): Jadhav, S.S., Marcia, M.

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Funding Organization	Location	Grant Number
Region Auvergne Rhone Alpes	France	project R21105CC; allocation RPH21004CCA
Fondation ARC	France	PJA-20191209284
Institut National du Cancer (inCA)	France	18CN047-00
Other government		Canceropole CLARA - Oncostarter
Agence Nationale de la Recherche (ANR)	France	ANR-10-INBS-0005-02
Agence Nationale de la Recherche (ANR)	France	ANR-17-EURE-0003
Other government		Wellcome Collaborative Award in Science (209250/Z/17/Z)
Other government		BWFGB Hamburg
Other government		Leibniz ScienceCampus InterACt

Revision History  

• Version 1.0: 2025-11-05
  Type: Initial release