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Ligand DNA

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Basic Ligand Information

Molecular Structure
Picture of DNA (click for magnification)
Molecular Formula
BRENDA Name
InChIKey
C59H73N25O35P6R2
DNA


Show all pahtways known for Show all BRENDA pathways known for DNA

Roles as Enzyme Ligand

In Vivo Substrate in Enzyme-catalyzed Reactions (35 results)

EC NUMBER
PROVEN IN VIVO REACTION
REACTION DIAGRAM
LITERATURE
ENZYME 3D STRUCTURE
deoxynucleoside triphosphate + DNA = diphosphate + DNAn+1
show the reaction diagram
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DNA + H2O = 5'-phosphodinucleotide + 5'-phosphooligonucleotide
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DNA + H2O = ?
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DNA + H2O = specific double-stranded DNA fragments with terminal 5'-phosphate
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DNA + H2O = ?
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DNA + H2O = ?
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DNA + H2O = ?
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DNA + H2O = ?
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DNA + H2O = ?
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DNA + H2O = ?
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DNA + H2O = 3'-deoxymononucleotides + dinucleotides
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DNA + H2O = smaller DNA fragments
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DNA + H2O = ?
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DNA + H2O = ?
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DNA + H2O = ?
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DNA + H2O = adenosine 5'-monophosphate + ?
show the reaction diagram
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In Vivo Product in Enzyme-catalyzed Reactions (16 results)

EC NUMBER
PROVEN IN VIVO REACTION
REACTION DIAGRAM
LITERATURE
ENZYME 3D STRUCTURE
nitrated DNA + NADPH = DNA + NADP+ + H2O
show the reaction diagram
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DNA-RNA hybrid + H2O = DNA + RNA nucleotides
show the reaction diagram
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DNA-RNA hybrid + H2O = DNA + 5'-phosphonucleotides
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hypoxanthine-containing DNA + H2O = hypoxanthine + DNA
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DNA + ATP + H2O = DNA + ADP + phosphate
show the reaction diagram
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Substrate in Enzyme-catalyzed Reactions (90 results)

EC NUMBER
REACTION
REACTION DIAGRAM
LITERATURE
ENZYME 3D STRUCTURE
DNA + H2O = ?
show the reaction diagram
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DNA + H2O = ?
show the reaction diagram
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DNA + H2O = nucleoside 5'-phosphates
show the reaction diagram
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DNA + H2O = deoxynucleoside 3'-phosphates
show the reaction diagram
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DNA + H2O = ?
show the reaction diagram
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DNA + H2O = ?
show the reaction diagram
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DNA + H2O = ?
show the reaction diagram
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DNA + H2O = ?
show the reaction diagram
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DNA + H2O = ?
show the reaction diagram
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DNA + H2O = nucleoside 5'-monophosphates
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DNA + H2O = DNA(n-1) + 2'-deoxynucleoside 5'-phosphate
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DNA + H2O = smaller DNA fragments
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DNA + H2O = ?
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DNA + H2O = fragments of DNA
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DNA + H2O = ?
show the reaction diagram
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DNA + H2O = ?
show the reaction diagram
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DNA = ?
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DNA + H2O = ?
show the reaction diagram
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DNA + H2O = ?
show the reaction diagram
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DNA + H2O = adenosine 5'-monophosphate + ?
show the reaction diagram
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DNA = ?
show the reaction diagram
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ATP + DNA = AMP + diphosphate + ?
show the reaction diagram
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ATP + DNA = ?
show the reaction diagram
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Product in Enzyme-catalyzed Reactions (71 results)

EC NUMBER
REACTION
REACTION DIAGRAM
LITERATURE
ENZYME 3D STRUCTURE
nitrated DNA + NADPH = DNA + NADP+ + H2O
show the reaction diagram
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dGTP + DNA = diphosphate + DNA
show the reaction diagram
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DNA with 3'-phosphate ends + H2O = DNA + phosphate
show the reaction diagram
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hypoxanthine-containing DNA + H2O = hypoxanthine + DNA
show the reaction diagram
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dUMP DNA + H2O = dUMP + DNA
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DNA = DNA
show the reaction diagram
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DNA + ATP + H2O = DNA + ADP + phosphate
show the reaction diagram
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Activator in Enzyme-catalyzed Reactions (28 results)

EC NUMBER
COMMENTARY
LITERATURE
ENZYME 3D STRUCTURE
increased activity on Sul7d, but not Cren7, in the presence of DNA
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enzyme form A activated by low concentration, enzyme form B inhibited
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enhances activity
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activity is highest in the presence of 0.2 mg/ml DNA
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YabT possesses a DNA-binding motif essential for its activation: in the cytosolic part of YabT, partially overlapping with the catalytic domain, there is a region rich in lysine and arginine residues stretching from residues 230-315, which forms the DNA binding site. The entire region of amino acid residues 230-315 is required for DNA binding. YabT is capable of binding both ssDNA and dsDNA, binding of ssDNA seems to be more efficient. YabT binding of DNA is not sequence specific, and can be achieved with DNA fragments with minimal length of 15 bases. Also the activation of YabT is more efficient with ssDNA
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activation
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autophosphorylation activity is increased 5-10fold in a Ca2+-independent manner
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the cyclase activity is stimulated by DNA but not by RNA
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ATPase activity is activated by primed DNA templates, such as poly(dA)-oligo(dT). ATPase activity of the SsoRFC-complex is substantially stimulated by the primed homopolymer, whereas no effect is detected in the presence of poly(dA)400. The maximal activation (about tenfold) of the ATP-hydrolyzing activity is measured in the presence of poly(dA)4000-oligo(dT)45 at 140 nM
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stimulates
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stability of the enzyme's closed clamp conformation may influence DNA-stimulated ATP hydrolysis
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Inhibitor in Enzyme-catalyzed Reactions (27 results)

EC NUMBER
COMMENTARY
LITERATURE
ENZYME 3D STRUCTURE
various DNA lesions significantly affect the efficiency and fidelity of RNA synthesis. DNA modifications that disrupt correct base-pairing can strongly inhibit transcription and increase nucleotide misincorporation by RNAP. The universal transcription factor GreA and Deinococcus-specific factor Gfh1 stimulate RNAP stalling at various DNA lesions, depending on the type of the lesion and the presence of Mn2+ ions
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the enzyme activity is inhibited by DNA-binding
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cleavage of DNA is inhibited by an increased degree of negative supercoiling
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inhibitory above 0.4 mg/ml
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single-stranded or double-stranded, very strong
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markedly inhibited by low concentrations of native DNA
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depurinated DNA competitively inhibits the UV endonuclease activity, irradiated DNA inhibits the AP endonuclease activity
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strong inhibition by denaturated DNA, slight inhibition by native DNA
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denatured
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Enzyme Kinetic Parameters

kcat Value (Turnover Number) (21 results)

EC NUMBER
TURNOVER NUMBER [1/S]
TURNOVER NUMBER MAXIMUM [1/S]
COMMENTARY
LITERATURE
0.117
-
-
0.4
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pH 7.6, 21°C, C/G matched nick DNA substrate

KM Value (51 results)

EC NUMBER
KM VALUE [MM]
KM VALUE MAXIMUM [MM]
COMMENTARY
LITERATURE
0.0000018
-
5'-OH blunt end double-stranded DNA
0.0142
-
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0.000136
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pH 7.6, 21°C, C/G matched nick DNA substrate

References & Links

Links to other databases for DNA

ChEBI
PubChem
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