6.5.1.6: DNA ligase (ATP or NAD+)

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For detailed information about DNA ligase (ATP or NAD+), go to the full flat file.

Reaction

5'-(5'-diphosphoadenosine)-(deoxyribonucleotide)m

Synonyms

Tfu DNA ligase

ECTree

6 Ligases

6.5 Forming phosphoric-ester bonds

6.5.1 Ligases that form phosphoric-ester bonds (only sub-subclass identified to date)

6.5.1.6 DNA ligase (ATP or NAD+)

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Results	in table
107	AA Sequence
2	Cloned(Commentary)
4	Inhibitors
2	KM Value [mM]
5	Metals/Ions
1	Molecular Weight [Da]
2	Organism
1	PDB ID
3	pH Optimum
2	pH Range
2	Purification (Commentary)
11	Reaction
2	Reference
8	Substrates and Products (Substrate)
1	Subunits
1	Synonyms
1	Systematic Name
2	Temperature Optimum [°C]
2	Temperature Range [°C]
2	Temperature Stability [°C]

Systematic Name

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Systematic Name on EC 6.5.1.6 - DNA ligase (ATP or NAD+)

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poly(deoxyribonucleotide)-3'-hydroxyl:5'-phospho-poly(deoxyribonucleotide) ligase (ATP or NAD+)

The enzymes from the archaea Thermococcus fumicolans and Thermococcus onnurineus show high activity with either ATP or NAD+, and significantly lower activity with TTP, GTP, and CTP. The enzyme catalyses the ligation of DNA strands with 3'-hydroxyl and 5'-phosphate termini, forming a phosphodiester and sealing certain types of single-strand breaks in duplex DNA. Catalysis occurs by a three-step mechanism, starting with the activation of the enzyme by ATP or NAD+, forming a phosphoramide bond between adenylate and a lysine residue. The adenylate group is then transferred to the 5'-phosphate terminus of the substrate, forming the capped structure 5'-(5'-diphosphoadenosine)-[DNA]. Finally, the enzyme catalyses a nucleophilic attack of the 3'-OH terminus on the capped terminus, which results in formation of the phosphodiester bond and release of the adenylate. Different from EC 6.5.1.1, DNA ligase (ATP), EC 6.5.1.2, DNA ligase (NAD+) and EC 6.5.1.7, DNA ligase (ATP, ADP or GTP).