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Literature summary for 3.1.4.59 extracted from

  • Rao, F.; See, R.; Zhang, D.; Toh, D.; Ji, Q.; Liang, Z.
    YybT is a signaling protein that contains a cyclic dinucleotide phosphodiesterase domain and a GGDEF domain with ATPase activity (2010), J. Biol. Chem., 285, 473-482.
    View publication on PubMed
Search for more literature for 3.1.4.59

Protein Variants

Protein Variants Comment Organism
D420A mutant exhibits residual activity against c-di-AMP, c-di-GMP, bis-p-nitrophenol phosphate, and thymidine monophosphate p-nitrophenol ester Bacillus subtilis
D420A/D499A mutation totally abolishes the catalytic activity Bacillus subtilis

Inhibitors

Inhibitors Comment Organism Structure
guanosine pentaphosphate ppGpp is a strong competitive inhibitor of the DHH/DHHA1 domain Bacillus subtilis

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
0.0013
-
 cyclic di-3',5'-adenylate pH 8.3, temperature not specified in the publication Bacillus subtilis
0.349
-
 cyclic di-3',5'-guanylate pH 8.3, temperature not specified in the publication Bacillus subtilis

Metals/Ions

Metals/Ions Comment Organism Structure
Co2+ about 65% of the activity with Mn2+ Bacillus subtilis
Mg2+ about 15% of the activity with Mn2+ Bacillus subtilis
Mn2+ enzyme is strictly dependent on divalent cation, best cofactor is Mn2+ Bacillus subtilis
Ni2+ about 55% of the activity with Mn2+ Bacillus subtilis

Organism

Organism UniProt Comment Textmining
Bacillus subtilis P37484 protein is a DHHA1 domain protein, COG3387 family member
-
Bacillus subtilis 168 P37484 protein is a DHHA1 domain protein, COG3387 family member
-

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
cyclic di-3',5'-adenylate + H2O
-
 Bacillus subtilis 5'-O-phosphonoadenylyl-(3'->5')-adenosine
-
 ?
cyclic di-3',5'-adenylate + H2O
-
 Bacillus subtilis 168 5'-O-phosphonoadenylyl-(3'->5')-adenosine
-
 ?
cyclic di-3',5'-guanylate + H2O
-
 Bacillus subtilis 5'-phosphoguanylyl-(3'->5')guanosine
-
 ?
cyclic di-3',5'-guanylate + H2O
-
 Bacillus subtilis 168 5'-phosphoguanylyl-(3'->5')guanosine
-
 ?

Synonyms

Synonyms Comment Organism
YybT
-
 Bacillus subtilis

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
0.23
-
 cyclic di-3',5'-guanylate pH 8.3, temperature not specified in the publication Bacillus subtilis
0.55
-
 cyclic di-3',5'-adenylate pH 8.3, temperature not specified in the publication Bacillus subtilis

Ki Value [mM]

Ki Value [mM] Ki Value maximum [mM] Inhibitor Comment Organism Structure
0.0359
-
 guanosine pentaphosphate pH 8.3, temperature not specified in the publication Bacillus subtilis

General Information

General Information Comment Organism
physiological function the DHH/DHHA1 domain hydrolyzes c-di-AMP and c-di-GMP to generate the linear dinucleotides 5'-pApA and 5'-pGpG. The atypical GGDEF domain of YybT exhibits ATPase activity. YybT participates in DNA damage and acid resistance Bacillus subtilis