8XCC | pdb_00008xcc

Cryo-EM structure of Cas12o1 (E100K), crRNA and target DNA complex

• PDB DOI: https://doi.org/10.2210/pdb8XCC/pdb
• NAKB: 8XCC
• EM Map EMD-38239: EMDB EMDataResource

• Classification: RNA BINDING PROTEIN/RNA/DNA
• Organism(s): unclassified sequences
• Expression System: Escherichia coli BL21(DE3), unclassified sequences
• Mutation(s): No 


• Deposited: 2023-12-08 Released: 2024-12-11 
• Deposition Author(s): Zhang, X.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

---

Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.20 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure and genome editing activity of the novel CRISPR-Cas12o1 effector.

Duan, Z., Zhang, X., Zhang, J.T., Ji, X., Liu, R., Chen, Y., Li, S., Jia, N., Gao, H., Xin, Y., Jia, N., Zhu, J.K.

(2025) Cell Res 35: 145-148

• PubMed: 39516663 
• DOI: https://doi.org/10.1038/s41422-024-01050-y
• Primary Citation of Related Structures:  
  8XCA, 8XCC

---

Organizational Affiliation: 
• Institute of Advanced Biotechnology and School of Medicine, Southern University of Science and Technology, Shenzhen, Guangdong, China.
Department of Biochemistry, School of Medicine, Southern University of Science and Technology, Shenzhen, Guangdong, China.
Bellagen Biotechnology Co. Ltd., Jinan, Shandong, China.
Department of Biochemistry, School of Medicine, Southern University of Science and Technology, Shenzhen, Guangdong, China. [e-mail].
Shenzhen Key Laboratory of Cell Microenvironment, Guangdong Provincial Key Laboratory of Cell Microenvironment and Disease Research, Southern University of Science and Technology, Shenzhen, Guangdong, China. [e-mail].
Key University Laboratory of Metabolism and Health of Guangdong, Institute for Biological Electron Microscopy, Southern University of Science and Technology, Shenzhen, Guangdong, China. [e-mail].
Institute of Advanced Biotechnology and School of Medicine, Southern University of Science and Technology, Shenzhen, Guangdong, China. [e-mail].
Center for Advanced Bioindustry Technologies, Chinese Academy of Agricultural Sciences, Beijing, China. [e-mail].

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 151.9 kDa 
• Atom Count: 5,617 
• Modeled Residue Count: 602 
• Deposited Residue Count: 1,056 
• Unique protein chains: 1
• Unique nucleic acid chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cas12j19(E100K)	A	908	unclassified sequences	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Length	Organism	Image
CrRNA	B	60	unclassified sequences

Entity ID: 3
Molecule	Chains	Length	Organism	Image
TS-DNA	C	44	unclassified sequences

Entity ID: 4
Molecule	Chains	Length	Organism	Image
NTS-DNA	D	44	unclassified sequences

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.20 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-12-11 
Deposition Author(s): Zhang, X.

---

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2024-12-11
  Type: Initial release
  
• Version 1.1: 2025-08-13
  Changes: Data collection, Database references, Structure summary
• Version 1.2: 2025-08-20
  Changes: Data collection, Database references