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Structure paper

TitleMolecular basis of RADAR anti-phage supramolecular assemblies.
Journal, issue, pagesCell, Vol. 186, Issue 5, Page 999-1012.e20, Year 2023
Publish dateMar 2, 2023
AuthorsYina Gao / Xiu Luo / Peipei Li / Zhaolong Li / Feng Ye / Songqing Liu / Pu Gao /
PubMed AbstractAdenosine-to-inosine RNA editing has been proposed to be involved in a bacterial anti-phage defense system called RADAR. RADAR contains an adenosine triphosphatase (RdrA) and an adenosine deaminase ...Adenosine-to-inosine RNA editing has been proposed to be involved in a bacterial anti-phage defense system called RADAR. RADAR contains an adenosine triphosphatase (RdrA) and an adenosine deaminase (RdrB). Here, we report cryo-EM structures of RdrA, RdrB, and currently identified RdrA-RdrB complexes in the presence or absence of RNA and ATP. RdrB assembles into a dodecameric cage with catalytic pockets facing outward, while RdrA adopts both autoinhibited tetradecameric and activation-competent heptameric rings. Structural and functional data suggest a model in which RNA is loaded through the bottom section of the RdrA ring and translocated along its inner channel, a process likely coupled with ATP-binding status. Intriguingly, up to twelve RdrA rings can dock one RdrB cage with precise alignments between deaminase catalytic pockets and RNA-translocation channels, indicative of enzymatic coupling of RNA translocation and deamination. Our data uncover an interesting mechanism of enzymatic coupling and anti-phage defense through supramolecular assemblies.
External linksCell / PubMed:36764292
MethodsEM (single particle)
Resolution2.58 - 7.03 Å
Structure data

34962

8hr7

EMDB-34962, PDB-8hr7:
Structure of RdrA-RdrB complex
Method: EM (single particle) / Resolution: 3.96 Å

34963

8hr8

EMDB-34963, PDB-8hr8:
Structure of heptameric RdrA ring
Method: EM (single particle) / Resolution: 3.3 Å

34964

8hr9

EMDB-34964, PDB-8hr9:
Structure of tetradecameric RdrA ring
Method: EM (single particle) / Resolution: 3.03 Å

34965

8hra

EMDB-34965, PDB-8hra:
Structure of heptameric RdrA ring in RNA-loading state
Method: EM (single particle) / Resolution: 3.76 Å

34966

8hrb

EMDB-34966, PDB-8hrb:
Structure of tetradecameric RdrA ring in RNA-loading state
Method: EM (single particle) / Resolution: 3.78 Å

34967

8hrc

EMDB-34967, PDB-8hrc:
Structure of dodecameric RdrB cage
Method: EM (single particle) / Resolution: 2.58 Å

EMDB-34969: Cryo-EM map of the RdrA-RdrB complex in 2:1 ratio
Method: EM (single particle) / Resolution: 7.03 Å

EMDB-34970: Cryo-EM map of the RdrA-RdrB complex in 3:1 ratio
Method: EM (single particle) / Resolution: 6.56 Å

EMDB-34971: Cryo-EM map of the RdrA-RdrB complex in 5:1 ratio
Method: EM (single particle) / Resolution: 6.48 Å

Chemicals

ChemComp-ATP:
ADENOSINE-5'-TRIPHOSPHATE / ATP, energy-carrying molecule*YM

Source
  • escherichia coli (E. coli)
KeywordsIMMUNE SYSTEM / Cryoelectron microscopy / adenosine triphosphatase / adenosine deaminase

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