Abstract
Properties of 2'-aldehyde-containing double stranded DNAs (dsDNAs) have been studied for the first time as substrate analogs of the restriction endonuclease SsoII. These reactive oligonucleotides were successfully cross-linked to the restriction endonuclease SsoII by reductive amination, and conditions for DNA-protein conjugate trypsinolysis followed by the oligonucleotide-peptide conjugate purification were optimized. Use of MALDI-TOF mass spectrometry revealed that covalent linkage forms between the sugar moiety of the central pyrimidine nucleoside of the SsoII recognition site and Lys173 of the enzyme. The latter is probably involved in initial steps of enzyme-substrate recognition during dsDNA readout.
Publication types
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Research Support, Non-U.S. Gov't
MeSH terms
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Aldehydes / chemistry
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Base Sequence
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Binding Sites / genetics
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Binding, Competitive
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DNA / chemistry
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DNA / genetics
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DNA / metabolism*
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Deoxyribonucleases, Type II Site-Specific / chemistry
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Deoxyribonucleases, Type II Site-Specific / metabolism*
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Electrophoresis, Polyacrylamide Gel
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Models, Chemical
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Nucleic Acid Heteroduplexes / chemistry
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Nucleic Acid Heteroduplexes / genetics
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Nucleic Acid Heteroduplexes / metabolism
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Oligonucleotides / chemistry
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Oligonucleotides / genetics
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Oligonucleotides / metabolism
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Protein Binding
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Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization
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Substrate Specificity
Substances
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Aldehydes
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Nucleic Acid Heteroduplexes
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Oligonucleotides
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DNA
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CCNGG-specific type II deoxyribonucleases
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Deoxyribonucleases, Type II Site-Specific