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PMID:16109374

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Citation

Kamada, K and Hanaoka, F (2005) Conformational change in the catalytic site of the ribonuclease YoeB toxin by YefM antitoxin. Mol. Cell 19:497-509

Abstract

The eubacterial chromosome encodes various addiction modules that control global levels of translation through RNA degradation. Crystal structures of the Escherichia coli YefM2 (antitoxin)-YoeB (toxin) complex and the free YoeB toxin have been determined. The structure of the heterotrimeric complex reveals an asymmetric disorder-to-order recognition strategy, in which one C terminus of the YefM homodimer exclusively interacts with an atypical microbial ribonuclease (RNase) fold of YoeB. Comparison with the YefM-free YoeB structure indicates a conformational rearrangement of the RNase catalytic site of YoeB, induced by interaction with YefM. Complementary biochemical experiments demonstrate that the YoeB toxin has an in vitro RNase activity that preferentially cleaves at the 3' end of purine ribonucleotides.

Links

PubMed Online version:10.1016/j.molcel.2005.07.004

Keywords

Amino Acid Sequence; Bacterial Toxins/chemistry; Bacterial Toxins/genetics; Bacterial Toxins/metabolism; Catalytic Domain/physiology; Crystallography, X-Ray; Dimerization; Enzyme Activation; Escherichia coli K12/genetics; Escherichia coli K12/metabolism; Escherichia coli Proteins/chemistry; Escherichia coli Proteins/genetics; Escherichia coli Proteins/metabolism; Models, Molecular; Molecular Sequence Data; Protein Structure, Tertiary; Ribonucleases/chemistry; Ribonucleases/genetics; Sequence Alignment; Surface Properties

Significance

Annotations

Gene product Qualifier GO Term Evidence Code with/from Aspect Extension Notes Status

ECOLI:YEFM

located_in

GO:0110001: toxin-antitoxin complex

ECO:0000353: physical interaction evidence used in manual assertion

C

Seeded From UniProt

complete

ECOLI:YEFM

involved_in

GO:0006355: regulation of transcription, DNA-templated

ECO:0005547: biological system reconstruction evidence based on inference from background scientific knowledge used in manual assertion

P

Seeded From UniProt

complete

ECOLI:YEFM

involved_in

GO:0040008: regulation of growth

ECO:0005547: biological system reconstruction evidence based on inference from background scientific knowledge used in manual assertion

P

Seeded From UniProt

complete

ECOLI:YOEB

located_in

GO:0110001: toxin-antitoxin complex

ECO:0000353: physical interaction evidence used in manual assertion

C

Seeded From UniProt

complete

ECOLI:YOEB

involved_in

GO:0006355: regulation of transcription, DNA-templated

ECO:0005547: biological system reconstruction evidence based on inference from background scientific knowledge used in manual assertion

P

Seeded From UniProt

complete

ECOLI:YOEB

involved_in

GO:0040008: regulation of growth

ECO:0005547: biological system reconstruction evidence based on inference from background scientific knowledge used in manual assertion

P

Seeded From UniProt

complete

ECOLI:YOEB

enables

GO:0004521: endoribonuclease activity

ECO:0000314: direct assay evidence used in manual assertion

F

Seeded From UniProt

complete

Notes

See also

References

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