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Literature summary for 3.1.3.5 extracted from

  • Zakataeva, N.P.; Romanenkov, D.V.; Yusupova, Y.R.; Skripnikova, V.S.; Asahara, T.; Gronskiy, S.V.
    Identification, heterologous expression, and functional characterization of Bacillus subtilis YutF, a HAD superfamily 5'-nucleotidase with broad substrate specificity (2016), PLoS ONE, 11, e0167580 .
    View publication on PubMedView publication on EuropePMC
Search for more literature for 3.1.3.5

Cloned(Commentary)

Cloned (Comment) Organism
expressed in Escherichia coli BL21(DE3) cells Bacillus subtilis

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
1.27
-
 5-phosphoribosyl-1-diphosphate at pH 8.9 and 25°C Bacillus subtilis
1.53
-
 5'-XMP at pH 8.9 and 25°C Bacillus subtilis
1.64
-
 4-nitrophenyl phosphate at pH 8.9 and 25°C Bacillus subtilis
6.65
-
 5'-GMP at pH 8.9 and 25°C Bacillus subtilis
24
-
 D-ribose 5-phosphate at pH 8.9 and 25°C Bacillus subtilis

Metals/Ions

Metals/Ions Comment Organism Structure
Mg2+ absolute requirement for Mg2+, 5 mM is the optimal concentration Bacillus subtilis

Molecular Weight [Da]

Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
65000
-
 gel filtration Bacillus subtilis

Natural Substrates/ Products (Substrates)

Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
a 5'-ribonucleotide + H2O Bacillus subtilis
-
 a ribonucleoside + phosphate
-
 ?

Organism

Organism UniProt Comment Textmining
Bacillus subtilis O32125
-
-
Bacillus subtilis 168 O32125
-
-

Purification (Commentary)

Purification (Comment) Organism
HisTrap column chromatography and Sephadex G-25 gel filtration Bacillus subtilis

Specific Activity [micromol/min/mg]

Specific Activity Minimum [µmol/min/mg] Specific Activity Maximum [µmol/min/mg] Comment Organism
0.0245
-
 at pH 8.9 and 25°C Bacillus subtilis

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
4-nitrophenyl phosphate + H2O best substrate, very high activity Bacillus subtilis 4-nitrophenol + phosphate
-
 ?
5'-ADP + H2O very low activity Bacillus subtilis AMP + phosphate
-
 ?
5'-AMP + H2O low activity Bacillus subtilis adenosine + phosphate
-
 ?
5'-AMP + H2O low activity Bacillus subtilis 168 adenosine + phosphate
-
 ?
5'-ATP + H2O very low activity Bacillus subtilis ADP + phosphate
-
 ?
5'-CTP + H2O low activity Bacillus subtilis CDP + phosphate
-
 ?
5'-dAMP + H2O low activity Bacillus subtilis deoxyadenosine + phosphate
-
 ?
5'-dAMP + H2O low activity Bacillus subtilis 168 deoxyadenosine + phosphate
-
 ?
5'-dGMP + H2O low activity Bacillus subtilis deoxyguanosine + phosphate
-
 ?
5'-dIMP + H2O low activity Bacillus subtilis deoxyinosine + phosphate
-
 ?
5'-GDP + H2O very low activity Bacillus subtilis GMP + phosphate
-
 ?
5'-GMP + H2O low activity Bacillus subtilis guanosine + phosphate
-
 ?
5'-GTP + H2O very low activity Bacillus subtilis GDP + phosphate
-
 ?
5'-IDP + H2O very low activity Bacillus subtilis IMP + phosphate
-
 ?
5'-IMP + H2O low activity Bacillus subtilis inosine + phosphate
-
 ?
5'-UMP + H2O low activity Bacillus subtilis uridine + phosphate
-
 ?
5'-UMP + H2O low activity Bacillus subtilis 168 uridine + phosphate
-
 ?
5'-XMP + H2O third best substrate Bacillus subtilis xanthosine + phosphate
-
 ?
5-phosphoribosyl-1-diphosphate + H2O
-
 Bacillus subtilis ?
-
 ?
a 5'-ribonucleotide + H2O
-
 Bacillus subtilis a ribonucleoside + phosphate
-
 ?
D-glucose 6-phosphate + H2O very low activity Bacillus subtilis D-glucose + phosphate
-
 ?
D-ribose 5-phosphate + H2O second best substrate Bacillus subtilis D-ribose + phosphate
-
 ?
D-ribose 5-phosphate + H2O second best substrate Bacillus subtilis 168 D-ribose + phosphate
-
 ?
ITP + H2O very low activity Bacillus subtilis IDP + phosphate
-
 ?
additional information no activity with 3'-CMP, 3'-AMP, and UDP-D-glucose Bacillus subtilis ?
-
 ?
additional information no activity with 3'-CMP, 3'-AMP, and UDP-D-glucose Bacillus subtilis 168 ?
-
 ?
UTP + H2O very low activity Bacillus subtilis UDP + phosphate
-
 ?

Subunits

Subunits Comment Organism
homodimer 2 * 29200, His6-tagged enzyme, calculated from amino acid sequence Bacillus subtilis
homodimer 2 * 30000, His6-tagged enzyme, SDS-PAGE Bacillus subtilis

Synonyms

Synonyms Comment Organism
YutF
-
 Bacillus subtilis

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
0.06
-
 5'-GMP at pH 8.9 and 25°C Bacillus subtilis
0.17
-
 5-phosphoribosyl-1-diphosphate at pH 8.9 and 25°C Bacillus subtilis
0.31
-
 5'-XMP at pH 8.9 and 25°C Bacillus subtilis
1.84
-
 D-ribose 5-phosphate at pH 8.9 and 25°C Bacillus subtilis
61
-
 4-nitrophenyl phosphate at pH 8.9 and 25°C Bacillus subtilis

pH Optimum

pH Optimum Minimum pH Optimum Maximum Comment Organism
6 6.5 in 100 mM MES buffer with 5'-IMP as a substrate Bacillus subtilis
8.7 9 in 100 mM Tris-HCl with 4-nitrophenyl phosphate as substrate Bacillus subtilis

kcat/KM [mM/s]

kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
0.009
-
 5'-GMP at pH 8.9 and 25°C Bacillus subtilis
0.077
-
 D-ribose 5-phosphate at pH 8.9 and 25°C Bacillus subtilis
0.13
-
 5-phosphoribosyl-1-diphosphate at pH 8.9 and 25°C Bacillus subtilis
0.21
-
 5'-XMP at pH 8.9 and 25°C Bacillus subtilis
37
-
 4-nitrophenyl phosphate at pH 8.9 and 25°C Bacillus subtilis