Any feedback?
Please rate this page
(literature.php)
(0/150)

BRENDA support

Literature summary extracted from

  • Cao, W.
    DNA ligases: Structure, function and mechanism (2002), Curr. Org. Chem., 6, 827-839.
No PubMed abstract available

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
6.5.1.1
-
 Escherichia phage T7
6.5.1.1 2.0 A crystal structure of D29A mutant complexed with AMP Chlorella virus

Protein Variants

EC Number Protein Variants Comment Organism
6.5.1.1 D29A crystal structure Chlorella virus
6.5.1.1 K159L adenylation site mutant, aboragates the ability of the ligase to covalently link to an AMP moiety Escherichia phage T7
6.5.1.1 K29A arrests ligation reaction at the substrate adenylation step Chlorella virus

Metals/Ions

EC Number Metals/Ions Comment Organism Structure
6.5.1.1 Mg2+ required for activity Vaccinia virus
6.5.1.1 Mn2+ required for activity Vaccinia virus
6.5.1.2 additional information no zinc-binding motif as known for bacterial DNA-ligase Melanoplus sanguinipes
6.5.1.2 additional information no zinc-binding motif as known for bacterial DNA-ligase Amsacta moorei entomopoxvirus

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
6.5.1.1 ATP + (deoxyribonucleotide)n + (deoxyribonucleotide)m Vaccinia virus
-
 AMP + diphosphate + (deoxyribonucleotide)m+n
-
 ?
6.5.1.1 ATP + (deoxyribonucleotide)n + (deoxyribonucleotide)m Escherichia phage T7
-
 AMP + diphosphate + (deoxyribonucleotide)m+n
-
 ?
6.5.1.1 ATP + (deoxyribonucleotide)n + (deoxyribonucleotide)m Chlorella virus
-
 AMP + diphosphate + (deoxyribonucleotide)m+n
-
 ?
6.5.1.2 NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m Bacillus subtilis DNA-repair, phosphodiester bond formation between adjacent 5'-phosphate and 3'-hydroxyl groups in double-stranded DNA AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m
-
 ?
6.5.1.2 NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m Aquifex aeolicus DNA-repair, phosphodiester bond formation between adjacent 5'-phosphate and 3'-hydroxyl groups in double-stranded DNA AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m
-
 ?
6.5.1.2 NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m Melanoplus sanguinipes DNA-repair, phosphodiester bond formation between adjacent 5'-phosphate and 3'-hydroxyl groups in double-stranded DNA AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m
-
 ?
6.5.1.2 NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m Amsacta moorei entomopoxvirus DNA-repair, phosphodiester bond formation between adjacent 5'-phosphate and 3'-hydroxyl groups in double-stranded DNA AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m
-
 ?

Organism

EC Number Organism UniProt Comment Textmining
6.5.1.1 Chlorella virus
-
-
-
6.5.1.1 Escherichia phage T7
-
-
-
6.5.1.1 Vaccinia virus
-
-
-
6.5.1.2 Amsacta moorei entomopoxvirus
-
 entomopoxvirus
-
6.5.1.2 Aquifex aeolicus
-
 one NAD+ and one ATP dependent DNA-ligase, ATP dependent enzyme displays limited activity in nick sealing
-
6.5.1.2 Bacillus subtilis
-
 one NAD+ dependent and two ATP dependent DNA-ligases, only NAD+ dependent enzyme is essential for growth
-
6.5.1.2 Melanoplus sanguinipes
-
 entomopoxvirus
-

Reaction

EC Number Reaction Comment Organism Reaction ID
6.5.1.2 ATP + (deoxyribonucleotide)n-3'-hydroxyl + 5'-phospho-(deoxyribonucleotide)m = (deoxyribonucleotide)n+m + AMP + beta-nicotinamide D-nucleotide 3 steps of reaction: 1. adenylation of the ligase in the presence of NAD+, 2. transferring the adenylate moiety to the 5'-phosphate of the nicked DNA substrate, 3. sealing the nick through the formation of a phosphodiester bond Bacillus subtilis
a
6.5.1.2 ATP + (deoxyribonucleotide)n-3'-hydroxyl + 5'-phospho-(deoxyribonucleotide)m = (deoxyribonucleotide)n+m + AMP + beta-nicotinamide D-nucleotide 3 steps of reaction: 1. adenylation of the ligase in the presence of NAD+, 2. transferring the adenylate moiety to the 5'-phosphate of the nicked DNA substrate, 3. sealing the nick through the formation of a phosphodiester bond Aquifex aeolicus
a
6.5.1.2 ATP + (deoxyribonucleotide)n-3'-hydroxyl + 5'-phospho-(deoxyribonucleotide)m = (deoxyribonucleotide)n+m + AMP + beta-nicotinamide D-nucleotide 3 steps of reaction: 1. adenylation of the ligase in the presence of NAD+, 2. transferring the adenylate moiety to the 5'-phosphate of the nicked DNA substrate, 3. sealing the nick through the formation of a phosphodiester bond Melanoplus sanguinipes
a
6.5.1.2 ATP + (deoxyribonucleotide)n-3'-hydroxyl + 5'-phospho-(deoxyribonucleotide)m = (deoxyribonucleotide)n+m + AMP + beta-nicotinamide D-nucleotide 3 steps of reaction: 1. adenylation of the ligase in the presence of NAD+, 2. transferring the adenylate moiety to the 5'-phosphate of the nicked DNA substrate, 3. sealing the nick through the formation of a phosphodiester bond Amsacta moorei entomopoxvirus
a

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
6.5.1.1 ATP + (deoxyribonucleotide)n + (deoxyribonucleotide)m
-
 Vaccinia virus AMP + diphosphate + (deoxyribonucleotide)m+n
-
 ?
6.5.1.1 ATP + (deoxyribonucleotide)n + (deoxyribonucleotide)m
-
 Escherichia phage T7 AMP + diphosphate + (deoxyribonucleotide)m+n
-
 ?
6.5.1.1 ATP + (deoxyribonucleotide)n + (deoxyribonucleotide)m
-
 Chlorella virus AMP + diphosphate + (deoxyribonucleotide)m+n
-
 ?
6.5.1.1 ATP + (deoxyribonucleotide)n + (deoxyribonucleotide)m both nick sealing and blunt end ligation Escherichia phage T7 AMP + diphosphate + (deoxyribonucleotide)m+n
-
 ?
6.5.1.1 ATP + (deoxyribonucleotide)n + (deoxyribonucleotide)m joins 2 DNA sequences on a DNA template but not on a RNA template Chlorella virus AMP + diphosphate + (deoxyribonucleotide)m+n
-
 ?
6.5.1.1 ATP + (deoxyribonucleotide)n + (deoxyribonucleotide)m ligates sticky end substrates efficiently but requires 10% polyethylene glycol 8000 for blunt end ligation Vaccinia virus AMP + diphosphate + (deoxyribonucleotide)m+n
-
 ?
6.5.1.2 NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m
-
 Bacillus subtilis AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m
-
 ?
6.5.1.2 NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m
-
 Aquifex aeolicus AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m
-
 ?
6.5.1.2 NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m
-
 Melanoplus sanguinipes AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m
-
 ?
6.5.1.2 NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m
-
 Amsacta moorei entomopoxvirus AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m
-
 ?
6.5.1.2 NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m DNA-repair, phosphodiester bond formation between adjacent 5'-phosphate and 3'-hydroxyl groups in double-stranded DNA Bacillus subtilis AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m
-
 ?
6.5.1.2 NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m DNA-repair, phosphodiester bond formation between adjacent 5'-phosphate and 3'-hydroxyl groups in double-stranded DNA Aquifex aeolicus AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m
-
 ?
6.5.1.2 NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m DNA-repair, phosphodiester bond formation between adjacent 5'-phosphate and 3'-hydroxyl groups in double-stranded DNA Melanoplus sanguinipes AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m
-
 ?
6.5.1.2 NAD+ + (deoxyribonucleotide)n + (deoxyribonucleotide)m DNA-repair, phosphodiester bond formation between adjacent 5'-phosphate and 3'-hydroxyl groups in double-stranded DNA Amsacta moorei entomopoxvirus AMP + nicotinamide nucleotide + (deoxyribonucleotide)n+m
-
 ?

Synonyms

EC Number Synonyms Comment Organism
6.5.1.1 T4 ATP ligase
-
 Escherichia phage T7
6.5.1.1 Vaccinia ligase
-
 Vaccinia virus

Temperature Stability [°C]

EC Number Temperature Stability Minimum [°C] Temperature Stability Maximum [°C] Comment Organism
6.5.1.1 37
-
 significant loss of ligation activity Vaccinia virus

Cofactor

EC Number Cofactor Comment Organism Structure
6.5.1.2 NAD+ required Bacillus subtilis
6.5.1.2 NAD+ required Aquifex aeolicus
6.5.1.2 NAD+ required Melanoplus sanguinipes
6.5.1.2 NAD+ required Amsacta moorei entomopoxvirus