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Literature summary extracted from

  • Del Arco, J.; Sanchez-Murcia, P.A.; Mancheno, J.M.; Gago, F.; Fernandez-Lucas, J.
    Characterization of an atypical, thermostable, organic solvent- and acid-tolerant 2'-deoxyribosyltransferase from Chroococcidiopsis thermalis (2018), Appl. Microbiol. Biotechnol., 102, 6947-6957 .
    View publication on PubMed

Application

EC Number Application Comment Organism
2.4.2.6 synthesis the enzyme is successfully employed in the enzymatic production of several therapeutic nucleosides such as didanosine, vidarabine, and cytarabine Chroococcidiopsis thermalis

Cloned(Commentary)

EC Number Cloned (Comment) Organism
2.4.2.6 gene Chro_1188, sequence comparisons, recombinant expression of N-terminally His6-tagged enzyme in Escherichia coli strain BL21(DE3) Chroococcidiopsis thermalis

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
2.4.2.6 additional information
-
 additional information Michaelis-Menten kinetics Chroococcidiopsis thermalis

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
2.4.2.6 additional information Chroococcidiopsis thermalis CtNDT recognizes purine bases and their corresponding 2'-deoxynucleosides but is also proficient using cytosine and 2'-deoxycytidine as substrates ?
-
-
2.4.2.6 additional information Chroococcidiopsis thermalis PCC 7203 CtNDT recognizes purine bases and their corresponding 2'-deoxynucleosides but is also proficient using cytosine and 2'-deoxycytidine as substrates ?
-
-

Organic Solvent Stability

EC Number Organic Solvent Comment Organism
2.4.2.6 Acetone stable at 20% v/v Chroococcidiopsis thermalis
2.4.2.6 acetonitrile stable at 20% v/v Chroococcidiopsis thermalis
2.4.2.6 chloroform loss of 30% activity at 20% v/v Chroococcidiopsis thermalis
2.4.2.6 DMSO loss of 10% activity at 20% v/v Chroococcidiopsis thermalis
2.4.2.6 Ethanol stable at 20% v/v Chroococcidiopsis thermalis
2.4.2.6 Ethyl acetate loss of 27% activity at 20% v/v Chroococcidiopsis thermalis
2.4.2.6 Ethylene glycol loss of 5% activity at 20% v/v Chroococcidiopsis thermalis
2.4.2.6 Glycerol loss of 40% activity at 20% v/v Chroococcidiopsis thermalis
2.4.2.6 isopropanol stable at 20% v/v Chroococcidiopsis thermalis
2.4.2.6 Methanol stable at 20% v/v Chroococcidiopsis thermalis
2.4.2.6 additional information CtNDT displays high activity (80-100%) in the presence of several water-miscible co-solvents in a proportion of up to 20% Chroococcidiopsis thermalis
2.4.2.6 N,N-dimethylformamide loss of 25% activity at 20% v/v Chroococcidiopsis thermalis
2.4.2.6 propylene glycol loss of 10% activity at 20% v/v Chroococcidiopsis thermalis

Organism

EC Number Organism UniProt Comment Textmining
2.4.2.6 Chroococcidiopsis thermalis K9TVX3
-
-
2.4.2.6 Chroococcidiopsis thermalis PCC 7203 K9TVX3
-
-

Purification (Commentary)

EC Number Purification (Comment) Organism
2.4.2.6 recombinant His6-tagged enzyme from Escherichia coli strain BL21(DE3) by nickel affinity chromatography, preparative gel fitration, dialysis, and ultrafiltration Chroococcidiopsis thermalis

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
2.4.2.6 2',3'-dideoxyadenosine + cytosine
-
 Chroococcidiopsis thermalis 2',3'-dideoxycytidine + adenine
-
 ?
2.4.2.6 2',3'-dideoxyadenosine + cytosine
-
 Chroococcidiopsis thermalis PCC 7203 2',3'-dideoxycytidine + adenine
-
 ?
2.4.2.6 2',3'-dideoxyadenosine + guanine
-
 Chroococcidiopsis thermalis 2',3'-dideoxyguanosine + adenine
-
 ?
2.4.2.6 2',3'-dideoxyadenosine + hypoxanthine
-
 Chroococcidiopsis thermalis 2',3'-dideoxyinosine + adenine
-
 ?
2.4.2.6 2',3'-dideoxyinosine + adenine
-
 Chroococcidiopsis thermalis 2',3'-dideoxyadenosine + hypoxanthine
-
 ?
2.4.2.6 2',3'-dideoxyinosine + adenine
-
 Chroococcidiopsis thermalis PCC 7203 2',3'-dideoxyadenosine + hypoxanthine
-
 ?
2.4.2.6 2',3'-dideoxyinosine + guanine
-
 Chroococcidiopsis thermalis 2',3'-dideoxyguanosine + hypoxanthine
-
 ?
2.4.2.6 2'-deoxyinosine + adenine
-
 Chroococcidiopsis thermalis 2'-deoxyadenosine + hypoxanthine
-
 ?
2.4.2.6 2'-deoxyinosine + adenine
-
 Chroococcidiopsis thermalis PCC 7203 2'-deoxyadenosine + hypoxanthine
-
 ?
2.4.2.6 2'-fluoro-2'-deoxyinosine + adenine
-
 Chroococcidiopsis thermalis 2'-fluoro-2'-deoxyadenosine + hypoxanthine
-
 ?
2.4.2.6 2'-fluoro-2'-deoxyinosine + guanine
-
 Chroococcidiopsis thermalis 2'-fluoro-2'-deoxyguanosine + hypoxanthine
-
 ?
2.4.2.6 9-beta-D-arabinofuranosyl adenine + cytosine
-
 Chroococcidiopsis thermalis ?
-
 ?
2.4.2.6 9-beta-D-arabinofuranosyl adenine + guanine
-
 Chroococcidiopsis thermalis ?
-
 ?
2.4.2.6 9-beta-D-arabinofuranosyl adenine + hypoxanthine
-
 Chroococcidiopsis thermalis ?
-
 ?
2.4.2.6 9-beta-D-arabinofuranosyl guanine + adenine
-
 Chroococcidiopsis thermalis ?
-
 ?
2.4.2.6 9-beta-D-arabinofuranosyl hypoxanthine + adenine
-
 Chroococcidiopsis thermalis ?
-
 ?
2.4.2.6 9-beta-D-arabinofuranosyl hypoxanthine + guanine
-
 Chroococcidiopsis thermalis ?
-
 ?
2.4.2.6 additional information CtNDT recognizes purine bases and their corresponding 2'-deoxynucleosides but is also proficient using cytosine and 2'-deoxycytidine as substrates Chroococcidiopsis thermalis ?
-
-
2.4.2.6 additional information CtNDT recognizes purine bases and their corresponding 2'-deoxynucleosides but is also proficient using cytosine and 2'-deoxycytidine as substrates, substrate specificity, overview. Cytidine does not react with 2',3'-dideoxyinosine, 2'-fluoro-2'-deoxyinosine, 9-beta-D-arabinofuranosyl guanine, and 9-beta-D-arabinofuranosyl hypoxanthine Chroococcidiopsis thermalis ?
-
-
2.4.2.6 additional information CtNDT recognizes purine bases and their corresponding 2'-deoxynucleosides but is also proficient using cytosine and 2'-deoxycytidine as substrates Chroococcidiopsis thermalis PCC 7203 ?
-
-
2.4.2.6 additional information CtNDT recognizes purine bases and their corresponding 2'-deoxynucleosides but is also proficient using cytosine and 2'-deoxycytidine as substrates, substrate specificity, overview. Cytidine does not react with 2',3'-dideoxyinosine, 2'-fluoro-2'-deoxyinosine, 9-beta-D-arabinofuranosyl guanine, and 9-beta-D-arabinofuranosyl hypoxanthine Chroococcidiopsis thermalis PCC 7203 ?
-
-

Subunits

EC Number Subunits Comment Organism
2.4.2.6 homotetramer
-
 Chroococcidiopsis thermalis

Synonyms

EC Number Synonyms Comment Organism
2.4.2.6 2'-deoxyribosyltransferase
-
 Chroococcidiopsis thermalis
2.4.2.6 Chro_1188
-
 Chroococcidiopsis thermalis
2.4.2.6 CtNDT
-
 Chroococcidiopsis thermalis
2.4.2.6 NDT
-
 Chroococcidiopsis thermalis
2.4.2.6 nucleoside 2-deoxyribosyltransferase
-
 Chroococcidiopsis thermalis

Temperature Optimum [°C]

EC Number Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
2.4.2.6 40 60 assay at Chroococcidiopsis thermalis

Temperature Stability [°C]

EC Number Temperature Stability Minimum [°C] Temperature Stability Maximum [°C] Comment Organism
2.4.2.6 50 100 good activity and stability at Chroococcidiopsis thermalis

pH Optimum

EC Number pH Optimum Minimum pH Optimum Maximum Comment Organism
2.4.2.6 6 8.5 assay at Chroococcidiopsis thermalis

pH Stability

EC Number pH Stability pH Stability Maximum Comment Organism
2.4.2.6 3 7 good activity and stability at Chroococcidiopsis thermalis

General Information

EC Number General Information Comment Organism
2.4.2.6 evolution a strict classification of CtNDTas either a type I or a type II NDT is not possible Chroococcidiopsis thermalis
2.4.2.6 additional information enzyme structure homology modeling, catalytic mechanism, overview. Glu88 is the catalytic residue whose carboxylate attacks the C1' of the nucleoside, is firmly positioned by the phenol of Tyr7. The carboxamide nitrogen of Asn118# and the Asp82 carboxylate recognize the O5' of the 2'-deoxyribose.Pro11 and Pro40 play a prominent role in making up the active site cavity. The heteroaromatic ring of the nucleobase is sandwiched between the phenyl rings of Phe14 and Phe41 on one side and the hydrophobic side chains of Val58 and Leu119# on the opposite side. The Met120# side chain sulfur appears close to the H1' atom, which suggests that it likely plays a role in transition state stabilization, together with the carboxylate of Asp62. The side chains of Tyr115' and possibly Asp53 can establish direct or water-bridged hydrogen bonds with the N7 of purines and the substituent on C6, be it an amino or a keto group. Asp62 of CtNDT plays a role in cytosine recognition, together with Arg43 and a protonated Asn44 Chroococcidiopsis thermalis