Activating Compound | Comment | Organism | Structure |
---|---|---|---|
additional information | no requirement for sulfhydryl reagent | Escherichia coli |
Application | Comment | Organism |
---|---|---|
analysis | DNA ligase is an essential reagent in studies on nucleic acid structure and metabolism | Escherichia coli |
analysis | DNA ligase, in combination with polynucleotide kinase, can be used to identify 3'- and 5'-end groups at single-strand interruptions by nearest neighbor analysis | Escherichia coli |
analysis | DNA ligase can be used to determine the ability of other enzymes to act at nicks and gaps in duplex DNA molecules | Escherichia coli |
analysis | DNA ligase can be used to study the primary and secondary structure of DNA molecules | Escherichia coli |
synthesis | DNA ligase is an indispensible reagent in the chemical synthesis of double-stranded DNA of specific nucleotide sequence | Escherichia coli |
synthesis | an important use of DNA ligase is the preparation of recombinant DNA molecules for use in the cloning of DNA | Escherichia coli |
Cloned (Comment) | Organism |
---|---|
- |
Escherichia coli |
Metals/Ions | Comment | Organism | Structure |
---|---|---|---|
Ca2+ | 60% as active as Mg2+ in activation as reported in one study, no activity in another | Escherichia coli | |
K+ | stimulates at low concentrations | Escherichia coli | |
Mg2+ | requires divalent cations, Mn2+ or Mg2+ | Escherichia coli | |
Mg2+ | optimal concentration: 1-3 mM | Escherichia coli | |
Mn2+ | requires divalent cations, Mn2+ or Mg2+ | Escherichia coli | |
NH4+ | stimulates at low concentrations | Escherichia coli | |
Zn2+ | slight activation | Escherichia coli |
Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
---|---|---|---|---|---|---|
NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m | Salmonella enterica subsp. enterica serovar Typhimurium | - |
? | - |
? | |
NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m | Bacillus subtilis | - |
? | - |
? | |
NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m | Escherichia coli | the enzyme is indispensable for normal cell growth and inviability of mutants seems to be primarily the result of an inability to seal Okazaki fragments | ? | - |
? |
Organism | UniProt | Comment | Textmining |
---|---|---|---|
Bacillus subtilis | - |
- |
- |
Escherichia coli | - |
- |
- |
Salmonella enterica subsp. enterica serovar Typhimurium | - |
- |
- |
Reaction | Comment | Organism | Reaction ID |
---|---|---|---|
ATP + (deoxyribonucleotide)n-3'-hydroxyl + 5'-phospho-(deoxyribonucleotide)m = (deoxyribonucleotide)n+m + AMP + beta-nicotinamide D-nucleotide | mechanism, the initial step is most likely a nucleophilic attack of the epsilon-amino group of a Lys on the adenylyl phosphorus of NAD+ | Escherichia coli |
Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
---|---|---|---|---|---|---|
additional information | NAD+/nicotinamide nucleotide exchange reaction | Escherichia coli | ? | - |
? | |
NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m | - |
Salmonella enterica subsp. enterica serovar Typhimurium | AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m | - |
? | |
NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m | - |
Bacillus subtilis | AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m | - |
? | |
NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m | oligonucleotides as short as six or seven in length can be joined if annealed to long complementary deoxyribonucleotides | Escherichia coli | AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m | - |
? | |
NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m | joining of 5'-phosphoryl terminus of DNA chain to the 3'-hydroxyl terminus of RNA | Escherichia coli | AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m | - |
? | |
NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m | the self-complementary polymer, poly(dA-dT), forms a looped-back structure that DNA ligase can join to yield a circular molecule | Escherichia coli | AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m | - |
? | |
NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m | catalyzes the joining of polynucleotide strands provided they have juxtaposed 3'-hydroxyl and 5'-phosphoryl end groups aligned in a duplex structure: e.g. annealed ends of lamdda DNA, endogenous nicks in T5 DNA, interruptions created by the action of pancreatic DNAse, annealed fragments generated by the staggered cutting action of some restriction endonucleases | Escherichia coli | AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m | - |
? | |
NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m | - |
Salmonella enterica subsp. enterica serovar Typhimurium | ? | - |
? | |
NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m | - |
Bacillus subtilis | ? | - |
? | |
NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m | the enzyme is indispensable for normal cell growth and inviability of mutants seems to be primarily the result of an inability to seal Okazaki fragments | Escherichia coli | ? | - |
? | |
NADH + (deoxyribonucleotide)n + (deoxyribonucleotide)m | NADH has a significantly higher Km as NAD+ | Escherichia coli | ? | - |
? | |
Thionicotinamide derivative of NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m | significantly higher Km as NAD+ | Escherichia coli | ? | - |
? |
pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
---|---|---|---|
6.5 | - |
NAD+/nicotinamide nucleotide exchange reaction | Escherichia coli |
7.5 | 8 | Tris-HCl buffer | Escherichia coli |
8 | - |
sodium phosphate buffer | Escherichia coli |