3VZI

Crystal Structure of CRISPR-associated Protein

Summary for 3VZI

• Entry DOI: 10.2210/pdb3vzi/pdb
• Descriptor: Crispr-associated protein Cas5, dvulg subtype (2 entities in total)
• Functional Keywords: rrm, ribonuclease, nucleic acid, dna binding protein
• Biological source: Xanthomonas oryzae pv. oryzae
• Total number of polymer chains: 2
• Total formula weight: 50415.59

Authors

Bae, E.,Koo, Y. (deposition date: 2012-10-12, release date: 2013-03-27, Last modification date: 2023-11-08)

Primary citation

Koo, Y.,Ka, D.,Kim, E.J.,Suh, N.,Bae, E.
Conservation and Variability in the Structure and Function of the Cas5d Endoribonuclease in the CRISPR-Mediated Microbial Immune System
J.Mol.Biol., 425:3799-3810, 2013

PubMed Abstract: Clustered regularly interspaced short palindromic repeats (CRISPRs) and CRISPR-associated (Cas) proteins form an RNA-mediated microbial immune system against invading foreign genetic elements. Cas5 proteins constitute one of the most prevalent Cas protein families in CRISPR-Cas systems and are predicted to have RNA recognition motif (RRM) domains. Cas5d is a subtype I-C-specific Cas5 protein that can be divided into two distinct subgroups, one of which has extra C-terminal residues while the other contains a longer insertion in the middle of its N-terminal RRM domain. Here, we report crystal structures of Cas5d from Streptococcus pyogenes and Xanthomonas oryzae, which respectively represent the two Cas5d subgroups. Despite a common domain architecture consisting of an N-terminal RRM domain and a C-terminal β-sheet domain, the structural differences between the two Cas5d proteins are highlighted by the presence of a unique extended helical region protruding from the N-terminal RRM domain of X. oryzae Cas5d. We also demonstrate that Cas5d proteins possess not only specific endoribonuclease activity for CRISPR RNAs but also nonspecific double-stranded DNA binding affinity. These findings suggest that Cas5d may play multiple roles in CRISPR-mediated immunity. Furthermore, the specific RNA processing was also observed between S. pyogenes Cas5d protein and X. oryzae CRISPR RNA and vice versa. This cross-species activity of Cas5d provides a special opportunity for elucidating conserved features of the CRISPR RNA processing event.

PubMed: 23500492
DOI: 10.1016/j.jmb.2013.02.032

Experimental method

X-RAY DIFFRACTION (2.66 Å)