9NO2 | pdb_00009no2

CryoEM structure of RibD-enolase complex

• PDB DOI: https://doi.org/10.2210/pdb9NO2/pdb
• EM Map EMD-49592: EMDB EMDataResource

• Classification: STRUCTURAL PROTEIN
• Organism(s): Francisella tularensis subsp. novicida
• Mutation(s): No 


• Deposited: 2025-03-07 Released: 2025-06-18 
• Deposition Author(s): Liu, X., Clemens, D., Lee, B., Aguirre, R., Horwitz, M., Zhou, Z.H.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

---

Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.05 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure, identification, and characterization of the RibD-enolase complex in Francisella.

Liu, X., Clemens, D.L., Lee, B.Y., Aguirre, R., Horwitz, M.A., Zhou, Z.H.

(2025) Protein Cell 16: 1048-1053

• PubMed: 40470850 
• DOI: https://doi.org/10.1093/procel/pwaf045
• Primary Citation Related Structures: 
  9NO2

---

Organizational Affiliation: 
• Department of Microbiology, Immunology and Molecular Genetics, University of California, Los Angeles (UCLA), Los Angeles, CA 90095, USA.
The California NanoSystems Institute (CNSI), UCLA, Los Angeles, CA 90095, USA.
Department of Medicine, UCLA, Los Angeles, CA 90095, USA.
Department of Chemistry and Biochemistry, University of California, Los Angeles (UCLA), Los Angeles, CA 90095, USA.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 178.4 kDa 
• Atom Count: 11,996 
• Modeled Residue Count: 1,556 
• Deposited Residue Count: 1,622 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Enolase	A, C	456	Francisella tularensis subsp. novicida	Mutation(s): 0  EC: 4.2.1.11
UniProt
Find proteins for A0Q5J9 (Francisella tularensis subsp. novicida (strain ATCC 15482 / CCUG 33449 / U112)) Explore A0Q5J9  Go to UniProtKB:  A0Q5J9

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Riboflavin biosynthesis protein RibD	B, D	355	Francisella tularensis subsp. novicida	Mutation(s): 0  EC: 3.5.4.26 (PDB Primary Data), 1.1.1.193 (PDB Primary Data)
UniProt
Find proteins for A0Q460 (Francisella tularensis subsp. novicida (strain ATCC 15482 / CCUG 33449 / U112)) Explore A0Q460  Go to UniProtKB:  A0Q460

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.05 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2025-06-18 
Deposition Author(s): Liu, X., Clemens, D., Lee, B., Aguirre, R., Horwitz, M., Zhou, Z.H.

---

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI151055
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM071940

Revision History  

• Version 1.0: 2025-06-18
  Type: Initial release
  
• Version 1.1: 2026-01-07
  Changes: Data collection, Database references