Home LiteratureArticle Details
PMID: 6269057 Published · ppublish English Journal Article

High sequence specificity of micrococcal nuclease.

Nucleic acids research ·Vol. 9 ·No. 12 ·1981-06-25 ·Pages 2659-73

Dingwall C, Lomonossoff GP, Laskey RA

Abstract

The substrate specificity of micrococcal nuclease (EC 3.1.4.7.) has been studied. The enzyme recognises features of nucleotide composition, nucleotide sequence and tertiary structure of DNA. Kinetic analysis indicates that the rate of cleavage is 30 times greater at the 5' side of A or T than at G or C. Digestion of end-labelled linear DNA molecules of known sequence revealed that only a limited number of sites are cut, generating a highly specific pattern of fragments. The frequency of cleavage at each site has been determined and it may reflect the poor base overlap in the 5' T-A 3' stack as well as the length of contiguous A and T residues. The same sequence preferences are found when DNA is assembled into nucleosomes. Deoxyribonuclease 1 (EC 3.1.4.5.) recognises many of the same sequence features. Micrococcal nuclease also mimics nuclease S1 selectively cleaving an inverted repeat in supercoiled pBR322. The value of micrococcal nuclease as a "non-specific" enzymatic probe for studying nucleosome phasing is questioned.

MeSH Terms
Base Sequence DNA DNA Restriction Enzymes Deoxyribonucleases/metabolism Kinetics Micrococcal Nuclease/metabolism Oligodeoxyribonucleotides Oligonucleotides Substrate Specificity
Chemicals
Oligodeoxyribonucleotides Oligonucleotides DNA Deoxyribonucleases DNA Restriction Enzymes Micrococcal Nuclease
Authors & Affiliations
3 authors, click to expand affiliations / ORCID
Dingwall C
Lomonossoff G P
Laskey R A
References (36)
36 references, click to expand
  1. The conformation dependent hydrolysis of DNA by micrococcal nuclease.
    Biochim Biophys Acta. 1968 Mar 18;157(1):114-26 PMID: 4296058
  2. Enzymatic breakage and joining of deoxyribonucleic acid. V. End group labeling and analysis of deoxyribonucleic acid containing single straned breaks.
    J Biol Chem. 1968 Sep 10;243(17):4530-42 PMID: 5684009
  3. Susceptibility of dinucleotides bearing either 3'- or 5'-monophosphate to micrococcal nuclease.
    J Biol Chem. 1969 Dec 25;244(24):6559-65 PMID: 4312002
  4. Selective elimination of the exonuclease activity of the deoxyribonucleic acid polymerase from Escherichia coli B by limited proteolysis.
    Proc Natl Acad Sci U S A. 1970 Jan;65(1):168-75 PMID: 4905667
  5. Chromatin sub-structure. The digestion of chromatin DNA at regularly spaced sites by a nuclear deoxyribonuclease.
    Biochem Biophys Res Commun. 1973 May 15;52(2):504-10 PMID: 4711166
  6. Use of micrococcal nuclease to monitor hybridization reactions with DNA.
    Anal Biochem. 1974 Apr;58(2):534-40 PMID: 4597219
  7. Subunit structure of chromatin.
    Nature. 1974 Sep 20;251(5472):249-51 PMID: 4422492
  8. X-ray fiber diffraction and model-building study of polyguanylic acid and polyinosinic acid.
    J Mol Biol. 1975 Feb 25;92(2):181-92 PMID: 1142423
  9. A comparison of the digestion of nuclei and chromatin by staphylococcal nuclease.
    Biochemistry. 1975 Jul;14(13):2915-20 PMID: 1148184
  10. Chain length determination of small double- and single-stranded DNA molecules by polyacrylamide gel electrophoresis.
    Biochemistry. 1975 Aug 26;14(17):3787-94 PMID: 1174504
  11. Quantitative film detection of 3H and 14C in polyacrylamide gels by fluorography.
    Eur J Biochem. 1975 Aug 15;56(2):335-41 PMID: 1175627
  12. Analysis of subunit organization in chicken erythrocyte chromatin.
    Proc Natl Acad Sci U S A. 1976 Feb;73(2):505-9 PMID: 1061151
  13. Action of micrococcal nuclease on chromatin and the location of histone H1.
    J Mol Biol. 1977 Jan 25;109(3):393-404 PMID: 833849
  14. Assembly of SV40 chromatin in a cell-free system from Xenopus eggs.
    Cell. 1977 Feb;10(2):237-43 PMID: 189936
  15. Structure of chromatin.
    Annu Rev Biochem. 1977;46:931-54 PMID: 332067
  16. Chromatin.
    Nature. 1978 Jan 12;271(5641):115-22 PMID: 340956
  17. Kinetic analysis of deoxyribonuclease I cleavages in the nucleosome core: evidence for a DNA superhelix.
    J Mol Biol. 1978 Sep 15;124(2):391-420 PMID: 568667
  18. Nucleosome cores reconstituted from poly (dA-dT) and the octamer of histones.
    Nucleic Acids Res. 1979;6(5):1805-16 PMID: 450714
  19. Complete nucleotide sequence of the Escherichia coli plasmid pBR322.
    Cold Spring Harb Symp Quant Biol. 1979;43 Pt 1:77-90 PMID: 383387
  20. A hypothesis on a specific sequence-dependent conformation of DNA and its relation to the binding of the lac-repressor protein.
    J Mol Biol. 1979 Jul 15;131(4):669-80 PMID: 513130
  21. A phase relationship associates tRNA structural gene sequences with nucleosome cores.
    Cell. 1979 Dec;18(4):1173-83 PMID: 519765
  22. Sequencing end-labeled DNA with base-specific chemical cleavages.
    Methods Enzymol. 1980;65(1):499-560 PMID: 6246368
  23. Assembly of nucleosomes: the reaction involving X. laevis nucleoplasmin.
    Cell. 1980 Sep;21(2):373-83 PMID: 7407918
  24. Transcription of tRNA genes in vivo: single-stranded compared to double-stranded templates.
    Proc Natl Acad Sci U S A. 1980 Jul;77(7):4147-51 PMID: 7001455
  25. Nonrandom alignment of nucleosomes on 5S RNA genes of X. laevis.
    Cell. 1980 Oct;21(3):751-60 PMID: 7438206
  26. Chromatin structure of the 5S RNA genes of D. melanogaster.
    Cell. 1980 Nov;22(2 Pt 2):387-92 PMID: 6778618
  27. The inverted repeat as a recognizable structural feature in supercoiled DNA molecules.
    Proc Natl Acad Sci U S A. 1980 Nov;77(11):6468-72 PMID: 6256738
  28. Cruciform structures in supercoiled DNA.
    Nature. 1981 Feb 5;289(5797):466-70 PMID: 7464915
  29. Non-random arrangement of nucleosomes in satellite I containing chromatin of rat liver.
    Nucleic Acids Res. 1980 Nov 25;8(22):5377-90 PMID: 6258142
  30. Multiple phases of nucleosomes in the hsp 70 genes of Drosophila melanogaster.
    Nucleic Acids Res. 1980 Dec 20;8(24):6059-68 PMID: 6258161
  31. Chromatin structure of the histone genes of D. melanogaster.
    Cell. 1981 Feb;23(2):401-9 PMID: 6258802
  32. Heterogeneity in deoxyribonucleic acids. I. Dependence on composition of the configurational stability of deoxyribonucleic acids.
    Nature. 1959 May 23;183(4673):1427-9 PMID: 13657152
  33. Studies on the mechanism of action of micrococcal nuclease. 1. Degradation of thymus deoxyribonucleic acid.
    Biochim Biophys Acta. 1962 May 14;55:664-73 PMID: 14492805
  34. Mechanism of action of micrococcal nuclease on deoxyribonucleic acid.
    J Biol Chem. 1962 Aug;237:2620-5 PMID: 13918300
  35. DEGRADATION OF THE HOMOPOLYMER COMPLEXES POLYDEOXYADENYLATE-POLYDEOXYTHYMIDYLATE, POLYDEOXYINOSINATE-POLYDEOXYCYTIDYLATE, AND POLYDEOXYGUANYLATE-POLYDEOXYCYTIDYLATE BY DEOXYRIBONUCLEASE I.
    J Biol Chem. 1965 Jun;240:2599-601 PMID: 14304873
  36. Nucleic acids. Selected topics related to their enzymology and chemistry.
    Annu Rev Biochem. 1960;29:453-74 PMID: 13815484
Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
0305-1048
DOI
10.1093/nar/9.12.2659
Published
1981-06-25
Pages
2659-73
Language
English
Region
England
NLM ID
0411011
PMCID
PMC326883
Subset
IM
External Links
PubMed source DOI: 10.1093/nar/9.12.2659 PMC Full Text View journal details
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com

Copyright © 2026.Genelibs Jinan Honghui Biotechnology Co., Ltd. 鲁ICP备20007159号-2