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Literature summary for 6.3.3.3 extracted from

  • Salaemae, W.; Yap, M.Y.; Wegener, K.L.; Booker, G.W.; Wilce, M.C.; Polyak, S.W.
    Nucleotide triphosphate promiscuity in Mycobacterium tuberculosis dethiobiotin synthetase (2015), Tuberculosis, 95, 259-266 .
    View publication on PubMed
Search for more literature for 6.3.3.3

Cloned(Commentary)

Cloned (Comment) Organism
-
 Mycobacterium tuberculosis
-
 Escherichia coli

Crystallization (Commentary)

Crystallization (Comment) Organism
in complex with CTP, to 2.3 A resolution. The nucleoside base is stabilized in its pocket through hydrogen-bonding interactions with the protein backbone, rather than amino acid side chains. DTBS could utilise ATP, CTP, GTP, ITP, TTP, or UTP with similar Km and kcat values Mycobacterium tuberculosis
in complex with CTP, to 2.3 A resolution. The nucleoside base is stabilized in its pocket through hydrogen-bonding interactions with the protein backbone, rather than amino acid side chains. DTBS could utilise ATP, CTP, GTP, ITP, TTP, or UTP with similar Km and kcat values Escherichia coli

Protein Variants

Protein Variants Comment Organism
G169N Km value for (7R, 8S)-7,8-diaminopelargonic acid similar to wild-type, 3fold increase in Km value for carbonate Mycobacterium tuberculosis
N175A 2.7fold decrease in Km value for CTP Escherichia coli
N175G no significant effects on Km value for ATP, CTP Escherichia coli

Inhibitors

Inhibitors Comment Organism Structure
ATP
-
 Escherichia coli
ATP
-
 Mycobacterium tuberculosis
CTP
-
 Escherichia coli
CTP
-
 Mycobacterium tuberculosis
GTP
-
 Escherichia coli
GTP
-
 Mycobacterium tuberculosis
ITP
-
 Mycobacterium tuberculosis
TTP
-
 Mycobacterium tuberculosis
UTP
-
 Mycobacterium tuberculosis

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
0.01
-
 ATP wild-type, pH 7.5, 37°C Escherichia coli
0.012
-
 ATP mutant N175A, pH 7.5, 37°C Escherichia coli
0.015
-
 (7R,8S)-7,8-diaminopelargonic acid wild-type, pH 7.5, 37°C Escherichia coli
0.015
-
 (7R,8S)-7,8-diaminopelargonic acid mutant G169N, pH 7.5, 37°C Mycobacterium tuberculosis
0.017
-
 ATP mutant N175G, pH 7.5, 37°C Escherichia coli
0.018
-
 ITP wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
0.018
-
 (7R,8S)-7,8-diaminopelargonic acid mutant N175G, pH 7.5, 37°C Escherichia coli
0.019
-
 (7R,8S)-7,8-diaminopelargonic acid mutant N175A, pH 7.5, 37°C Escherichia coli
0.022
-
 ATP mutant G169N, pH 7.5, 37°C Mycobacterium tuberculosis
0.023
-
 TTP wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
0.025
-
 CTP wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
0.026
-
 GTP wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
0.026
-
 UTP wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
0.03
-
 ATP wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
0.03
-
 (7R,8S)-7,8-diaminopelargonic acid wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
0.045
-
 CTP mutant G169N, pH 7.5, 37°C Mycobacterium tuberculosis
0.101
-
 GTP mutant G169N, pH 7.5, 37°C Mycobacterium tuberculosis
0.384
-
 NaHCO3 mutant N175G, pH 7.5, 37°C Escherichia coli
0.391
-
 CTP mutant N175A, pH 7.5, 37°C Escherichia coli
0.43
-
 NaHCO3 mutant N175A, pH 7.5, 37°C Escherichia coli
0.6
-
 NaHCO3 wild-type, pH 7.5, 37°C Escherichia coli
0.869
-
 CTP mutant N175G, pH 7.5, 37°C Escherichia coli
1.09
-
 CTP wild-type, pH 7.5, 37°C Escherichia coli
1.09
-
 GTP mutant N175A, pH 7.5, 37°C Escherichia coli
1.387
-
 GTP mutant N175G, pH 7.5, 37°C Escherichia coli
1.56
-
 GTP wild-type, pH 7.5, 37°C Escherichia coli
3.074
-
 NaHCO3 wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
10.385
-
 NaHCO3 mutant G169N, pH 7.5, 37°C Mycobacterium tuberculosis

Organism

Organism UniProt Comment Textmining
Escherichia coli P13000
-
-
Mycobacterium tuberculosis P9WPQ5
-
-
Mycobacterium tuberculosis H37Rv P9WPQ5
-
-

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
ATP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Mycobacterium tuberculosis ADP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
ATP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Escherichia coli ADP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
ATP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Mycobacterium tuberculosis H37Rv ADP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
CTP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Mycobacterium tuberculosis CDP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
CTP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Escherichia coli CDP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
CTP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Mycobacterium tuberculosis H37Rv CDP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
GTP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Mycobacterium tuberculosis GDP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
GTP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Escherichia coli GDP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
GTP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Mycobacterium tuberculosis H37Rv GDP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
ITP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Mycobacterium tuberculosis IDP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
ITP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Escherichia coli IDP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
ITP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Mycobacterium tuberculosis H37Rv IDP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
TTP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Mycobacterium tuberculosis TDP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
TTP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Escherichia coli TDP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
TTP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Mycobacterium tuberculosis H37Rv TDP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
UTP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Mycobacterium tuberculosis UDP + phosphate + dethiobiotin + Na+ + OH-
-
 ?
UTP + (7R,8S)-7,8-diaminopelargonic acid + NaHCO3
-
 Escherichia coli UDP + phosphate + dethiobiotin + Na+ + OH-
-
 ?

Subunits

Subunits Comment Organism
? x * 23500, SDS-PAGE Mycobacterium tuberculosis
? x * 23500, SDS-PAGE Escherichia coli

Synonyms

Synonyms Comment Organism
BioD
-
 Mycobacterium tuberculosis
BioD1
-
 Escherichia coli
DTBS
-
 Mycobacterium tuberculosis

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
0.9
-
 (7R,8S)-7,8-diaminopelargonic acid mutant G169N, pH 7.5, 37°C Mycobacterium tuberculosis
0.9
-
 (7R,8S)-7,8-diaminopelargonic acid mutant N175A, pH 7.5, 37°C Escherichia coli
1
-
 CTP mutant G169N, pH 7.5, 37°C Mycobacterium tuberculosis
1.2
-
 GTP mutant G169N, pH 7.5, 37°C Mycobacterium tuberculosis
1.3
-
 ATP mutant G169N, pH 7.5, 37°C Mycobacterium tuberculosis
1.7
-
 NaHCO3 mutant G169N, pH 7.5, 37°C Mycobacterium tuberculosis
9.9
-
 NaHCO3 wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
10.2
-
 ITP wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
11.1
-
 GTP wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
11.4
-
 UTP wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
11.7
-
 ATP wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
11.8
-
 TTP wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
13.3
-
 (7R,8S)-7,8-diaminopelargonic acid wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
15.2
-
 CTP wild-type, pH 7.5, 37°C Mycobacterium tuberculosis
15.4
-
 NaHCO3 mutant N175G, pH 7.5, 37°C Escherichia coli
16.2
-
 NaHCO3 mutant N175A, pH 7.5, 37°C Escherichia coli
16.3
-
 GTP mutant N175G, pH 7.5, 37°C Escherichia coli
18.1
-
 ATP mutant N175A, pH 7.5, 37°C Escherichia coli
18.3
-
 GTP mutant N175A, pH 7.5, 37°C Escherichia coli
19.1
-
 CTP mutant N175A, pH 7.5, 37°C Escherichia coli
19.6
-
 CTP mutant N175G, pH 7.5, 37°C Escherichia coli
23.2
-
 (7R,8S)-7,8-diaminopelargonic acid mutant N175G, pH 7.5, 37°C Escherichia coli
23.6
-
 ATP mutant N175G, pH 7.5, 37°C Escherichia coli
28.1
-
 CTP wild-type, pH 7.5, 37°C Escherichia coli
29
-
 GTP wild-type, pH 7.5, 37°C Escherichia coli
38.4
-
 NaHCO3 wild-type, pH 7.5, 37°C Escherichia coli
38.6
-
 ATP wild-type, pH 7.5, 37°C Escherichia coli
49
-
 (7R,8S)-7,8-diaminopelargonic acid wild-type, pH 7.5, 37°C Escherichia coli

IC50 Value

IC50 Value IC50 Value Maximum Comment Organism Inhibitor Structure
0.054
-
 wild-type, pH 7.5, 37°C Mycobacterium tuberculosis CTP
0.349
-
 wild-type, pH 7.5, 37°C Mycobacterium tuberculosis ATP
0.437
-
 wild-type, pH 7.5, 37°C Escherichia coli ATP
0.52
-
 wild-type, pH 7.5, 37°C Mycobacterium tuberculosis ITP
0.597
-
 wild-type, pH 7.5, 37°C Mycobacterium tuberculosis GTP
0.622
-
 wild-type, pH 7.5, 37°C Mycobacterium tuberculosis TTP
0.634
-
 wild-type, pH 7.5, 37°C Mycobacterium tuberculosis UTP
2
-
 above 2.0, wild-type, pH 7.5, 37°C Escherichia coli GTP
5.752
-
 wild-type, pH 7.5, 37°C Escherichia coli CTP