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Cas4 is an endonuclease found in some CRISPR systems that is used as part of the spacer acquisition stage.

Geobacter sulfurreducens Cas1-Cas2-Cas4 complex bound to double stranded protospacer adjacent motif (PAM) spacer DNA. Cas1 homodimers (blue) bind to each side of the Cas2 homodimer (red) with a Cas4 Fe-S nuclease (cyan) bridging the two. The 3′ end of each DNA strand threads into the Cas4 active site. PDB: 7MI4

Cas4 is required for efficient prespacer processing by forming a Cas4-Cas1-Cas2 complex. [1] In this complex, Cas4 cuts double-stranded substrates with long 3'-overhangs through site-specific endonucleolytic cleavage. [2] Cas4 closely interacts with the integrase active sites of Cas1, recognizes PAM sequences within the substrate and cleaves precisely upstream of them, ensuring the acquisition of functional spacers. [2] [1]

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