9B0L image
Entry Detail
PDB ID:
9B0L
EMDB ID:
EMD-44046
Keywords:
DNA BINDING PROTEIN/DNA/RNA
Title:
Cryo-EM structure of Acanthamoeba polyphaga mimivirus Fanzor2 ternary complex
Biological Source:
Source Organism:
Acanthamoeba polyphaga mimivirus
Host Organism:
Escherichia coli
PDB Version:
Deposition Date:
2024-03-12
Release Date:
2024-10-09
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
2.99 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
9B0L validation report
Macromolecular Entities
Polymer Type:polydeoxyribonucleotide
Description:DNA (5'-D(P*AP*GP*GP*AP*GP*GP*TP*GP*GP*CP*TP*GP*CP*CP*CP*CP*GP*AP*CP*CP*GP*TP*C)-3')
Chain IDs:D (auth: A)
Chain Length:23
Number of Molecules:1
Biological Source:Acanthamoeba polyphaga mimivirus
Polymer Type:polydeoxyribonucleotide
Description:DNA (5'-D(P*GP*AP*CP*GP*GP*TP*CP*GP*GP*GP*C)-3')
Chain IDs:A (auth: B)
Chain Length:11
Number of Molecules:1
Biological Source:Acanthamoeba polyphaga mimivirus
Polymer Type:polyribonucleotide
Description:RNA (117-MER)
Chain IDs:E (auth: C)
Chain Length:247
Number of Molecules:1
Biological Source:Acanthamoeba polyphaga mimivirus
Polymer Type:polydeoxyribonucleotide
Description:DNA (5'-D(P*CP*CP*CP*A)-3')
Chain IDs:C (auth: D)
Chain Length:4
Number of Molecules:1
Biological Source:Acanthamoeba polyphaga mimivirus
Protein Blast
Polymer Type:polypeptide(L)
Description:TnpB-like protein L79
Chain IDs:B (auth: P)
Chain Length:520
Number of Molecules:1
Biological Source:Acanthamoeba polyphaga mimivirus
UniProt ID:Q5UPF5 Pfam ID:PF01385, PF07282
Ligand Molecules
MG
ZN
Primary Citation
Structure of Fanzor2 reveals insights into the evolution of the TnpB superfamily.
Nat.Struct.Mol.Biol. 32 243 246 (2025)
PMID: 39354233 DOI: 10.1038/s41594-024-01394-4

Abstact

RNA-guided endonucleases, once thought to be exclusive to prokaryotes, have been recently identified in eukaryotes and are called Fanzors. They are classified into two clades, Fanzor1 and Fanzor2. Here we present the cryo-electron microscopy structure of Acanthamoeba polyphaga mimivirus Fanzor2, revealing its ωRNA architecture, active site and features involved in transposon-adjacent motif recognition. A comparison to Fanzor1 and TnpB structures highlights divergent evolutionary paths, advancing our understanding of RNA-guided endonucleases.

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Primary Citation of related structures
9B0L