8WRP | pdb_00008wrp

Cryo-EM structure of Cas12-1 with 20 nt complementary heteroduplex

• PDB DOI: https://doi.org/10.2210/pdb8WRP/pdb
• EM Map EMD-37785: EMDB EMDataResource
• NAKB: 8WRP

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


• Deposited: 2023-10-16 Released: 2025-04-16 
• Deposition Author(s): Kuo, Z., Xi, Z.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.83 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM mini structure of Cas12-1 with 5 nt complementary heteroduplex

Kuo, Z., Xi, Z.

To be published.

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: 127.15 kDa 
• Atom Count: 6,266 
• Modeled Residue Count: 660 
• Deposited Residue Count: 877 
• Unique protein chains: 1
• Unique nucleic acid chains: 3

Macromolecules

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Cas12-1	D [auth A]	737	unclassified sequences	Mutation(s): 0

Entity ID: 1
Molecule	Chains	Length	Organism	Image
RNA (39-MER)	A [auth B]	56	unclassified sequences

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (28-MER)	B [auth C]	42	unclassified sequences

Entity ID: 3
Molecule	Chains	Length	Organism	Image
DNA (5'-D(P*TP*GP*GP*CP*CP*AP*AP*TP*TP*C)-3')	C [auth D]	42	unclassified sequences

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.83 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: 2025-04-16 
Deposition Author(s): Kuo, Z., Xi, Z.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	32188102

Revision History  

• Version 1.0: 2025-04-16
  Type: Initial release
  
• Version 1.1: 2025-07-02
  Changes: Data collection