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Literature summary for 2.4.2.6 extracted from

  • Del Arco, J.; Perona, A.; Gonzalez, L.; Fernandez-Lucas, J.; Gago, F.; Sanchez-Murcia, P.A.
    Reaction mechanism of nucleoside 2-deoxyribosyltransferases free-energy landscape supports an oxocarbenium ion as the reaction intermediate (2019), Org. Biomol. Chem., 17, 7891-7899 .
    View publication on PubMed
Search for more literature for 2.4.2.6

Crystallization (Commentary)

Crystallization (Comment) Organism
analysis of the crystal structures with PDB IDs 1F8X and 1F8Y Lactobacillus leichmannii

Protein Variants

Protein Variants Comment Organism
E98D site-directed mutagenesis, molecular docking study Lactobacillus leichmannii
M125Nle site-directed mutagenesis, molecular docking study Lactobacillus leichmannii
Y7A site-directed mutagenesis, molecular docking study Lactobacillus leichmannii

Natural Substrates/ Products (Substrates)

Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
2-deoxy-D-ribosyl-base1 + base2 Lactobacillus leichmannii
-
 2-deoxy-D-ribosyl-base2 + base1
-
 ?

Organism

Organism UniProt Comment Textmining
Lactobacillus leichmannii Q9R5V5
-
-

Reaction

Reaction Comment Organism Reaction ID
2-deoxy-D-ribosyl-base1 + base2 = 2-deoxy-D-ribosyl-base2 + base1 reaction mechanism with oxocarbenium ion as the reaction intermediate, overview Lactobacillus leichmannii
a

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
2'-deoxyinosine + adenine
-
 Lactobacillus leichmannii 2'-deoxyadenosine + hypoxanthine
-
 ?
2-deoxy-D-ribosyl-base1 + base2
-
 Lactobacillus leichmannii 2-deoxy-D-ribosyl-base2 + base1
-
 ?

Synonyms

Synonyms Comment Organism
LlNDT
-
 Lactobacillus leichmannii
NDT
-
 Lactobacillus leichmannii
nucleoside 2'-deoxyribosyltransferase
-
 Lactobacillus leichmannii

General Information

General Information Comment Organism
additional information reaction mechanism of nucleoside 2'-deoxyribosyltransferases, a free-energy landscape supports an oxocarbenium ion as the reaction intermediate. Structure-function analysis of wild-type and mutant enzymes using enzyme crystal structures (PDB IDs 1F8X and 1F8Y), QM/MM MD simulations, overview Lactobacillus leichmannii