GdpP

• Description: cyclic dinucleotide phosphodiesterase

Gene name	yybT
Synonyms
Essential	no
Product	cyclic dinucleotide phosphodiesterase
Function	control of sporulation initiation
MW, pI	74 kDa, 4.865
Gene length, protein length	1977 bp, 659 aa
Immediate neighbours	rplI, yybS
Get the DNA and protein sequences (Barbe et al., 2009)
Genetic context This image was kindly provided by SubtiList

Categories containing this gene/protein

metabolism of signalling nucleotides

The gene

Basic information

• Locus tag: BSU40510

Database entries

• DBTBS entry: [1]

• SubtiList entry: [2]

The protein

Basic information/ Evolution

• Catalyzed reaction/ biological activity: cyclic dinucleotide phosphodiesterase, hydrolysis of di-cyclic AMP PubMed

• Protein family:

• Paralogous protein(s):

Extended information on the protein

• Kinetic information:

• Domains:
  • N-terminal domain that shares minimum sequence homology with Per-ARNT-Sim (PAS) domains PubMed

• Modification:

• Cofactor(s): b-type heme with 1:1 stoichiometry PubMed

• Effectors of protein activity:
  • ppGpp inhibits cyclic dinucleotide phosphodiesterase activity PubMed
  • Heme binding suppresses phosphodiesterase activity PubMed

• Interactions:

• Localization:

Database entries

• Structure:

• UniProt: P37484

• KEGG entry: [3]

• E.C. number:

Expression and regulation

• Operon: yybS-yybT-rplI (according to DBTBS)

• Sigma factor:

• Regulation:

• Regulatory mechanism:

• Additional information:

Biological materials

• Mutant: YA188 yybT::spc, available in Stülke lab
  • GP998 (yybT::spc), available in Stülke lab

• Expression vector:

• lacZ fusion:

• GFP fusion:

• two-hybrid system:

• Antibody:

References

Yaara Oppenheimer-Shaanan, Ezequiel Wexselblatt, Jehoshua Katzhendler, Eylon Yavin, Sigal Ben-Yehuda
c-di-AMP reports DNA integrity during sporulation in Bacillus subtilis.
EMBO Rep: 2011, 12(6);594-601
[PubMed:21566650] [WorldCat.org] [DOI] (I p)

Feng Rao, Qiang Ji, Ishin Soehano, Zhao-Xun Liang
Unusual heme-binding PAS domain from YybT family proteins.
J Bacteriol: 2011, 193(7);1543-51
[PubMed:21257773] [WorldCat.org] [DOI] (I p)

Feng Rao, Rui Yin See, Dongwei Zhang, Delon Chengxu Toh, Qiang Ji, Zhao-Xun Liang
YybT is a signaling protein that contains a cyclic dinucleotide phosphodiesterase domain and a GGDEF domain with ATPase activity.
J Biol Chem: 2010, 285(1);473-82
[PubMed:19901023] [WorldCat.org] [DOI] (I p)

YybT homologs in other organisms

Linda M Holland, Sinéad T O'Donnell, Dmitri A Ryjenkov, Larissa Gomelsky, Shawn R Slater, Paul D Fey, Mark Gomelsky, James P O'Gara
A staphylococcal GGDEF domain protein regulates biofilm formation independently of cyclic dimeric GMP.
J Bacteriol: 2008, 190(15);5178-89
[PubMed:18502872] [WorldCat.org] [DOI] (I p)