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Structure paper

TitleActivation of the bacterial defense-associated sirtuin system.
Journal, issue, pagesCommun Biol, Vol. 8, Issue 1, Page 297, Year 2025
Publish dateFeb 24, 2025
AuthorsKaixiang Zhu / Kun Shang / Linyue Wang / Xia Yu / Lei Hua / Weihe Zhang / Bo Qin / Jia Wang / Xiaopan Gao / Hongtao Zhu / Sheng Cui /
PubMed AbstractThe NADase activity of the defense-associated sirtuins (DSRs) is activated by the phage tail tube protein (TTP). Herein, we report cryo-EM structures of a free-state Bacillus subtilis DSR2 tetramer ...The NADase activity of the defense-associated sirtuins (DSRs) is activated by the phage tail tube protein (TTP). Herein, we report cryo-EM structures of a free-state Bacillus subtilis DSR2 tetramer and a fragment of the tetramer, a phage SPR tail tube, and two DSR2-TTP complexes. DSR2 contains an N-terminal SIR2 domain, a middle domain (MID) and a C-terminal domain (CTD). The DSR2 CTD harbors the α-solenoid tandem-repeats like the HEAT-repeat proteins. DSR2 assembles into a tetramer with four SIR2 clustered at the center, and two intertwined MID-CTD chains flank the SIR2 core. SPR TTPs self-assemble into a tube-like complex. Upon DSR2 binding, the D1 domain of SPR TTP is captured between the HEAT-repeats domains of DSR2, which conflicts with TTPs self-assembly. Binding of TTPs induces conformational changes in DSR2 tetramer, resulting in increase of the NAD pocket volume in SIR2, thus activates the NADase activity and leads to cellular NAD depletion.
External linksCommun Biol / PubMed:39994439 / PubMed Central
MethodsEM (single particle)
Resolution3.29 - 4.66 Å
Structure data

39233

8yg1

EMDB-39233, PDB-8yg1:
The Dimer Structure of DSR2 alone
Method: EM (single particle) / Resolution: 3.74 Å

39240

8yga

EMDB-39240, PDB-8yga:
The tetramer Structure of DSR2 alone
Method: EM (single particle) / Resolution: 4.53 Å

39243

8ygc

EMDB-39243, PDB-8ygc:
The Dimer Structure of DSR2-SPR
Method: EM (single particle) / Resolution: 4.03 Å

39246

8ygf

EMDB-39246, PDB-8ygf:
The tetramer Structure of SPR-DSR2 complex
Method: EM (single particle) / Resolution: 4.66 Å

39254

8ygk

EMDB-39254, PDB-8ygk:
The dimer Structure of SPR-DSR2(CTD) complex
Method: EM (single particle) / Resolution: 3.78 Å

39256

8ygm

EMDB-39256, PDB-8ygm:
The cryo-EM Structure of SPR
Method: EM (single particle) / Resolution: 3.43 Å

39257

8ygn

EMDB-39257, PDB-8ygn:
The Dimer Structure of DSR2-SPR with NAD
Method: EM (single particle) / Resolution: 4.27 Å

39258

8ygo

EMDB-39258, PDB-8ygo:
The complex by DSR2-CTD-SPR with NAD
Method: EM (single particle) / Resolution: 3.29 Å

39259

8ygp

EMDB-39259, PDB-8ygp:
The tetramer Structure of DSR2-SPR with NAD
Method: EM (single particle) / Resolution: 4.4 Å

Source
  • bacillus subtilis a29 (bacteria)
KeywordsHYDROLASE / SIR2 / NADase / dimer / SPR / DSR2-CTD / tetramer

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