Home LiteratureArticle Details
PMID: 6233535 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

1H NMR study of the interaction of bacteriophage lambda Cro protein with the OR3 operator. Evidence for a change of the conformation of the OR3 operator on binding.

Nucleic acids research ·Vol. 12 ·No. 8 ·1984-04-25 ·Pages 3551-61

Kirpichnikov MP, Hahn KD, Buck F, Rüterjans H, Chernov BK, Kurochkin AV, Skryabin KG, Bayev AA

Abstract

The specific complex between the lambda phage OR3 operator and the Cro protein has been studied by proton NMR spectroscopy at 500 MHz. The DNA imino proton resonances of this complex have been assigned to specific base pairs using the known assignments of these resonances for the free operator. Increase of the protein/DNA ratio to complete saturation of the OR3 operator with the Cro protein made it possible to follow the shift changes of the resonances. Ambiguities were resolved by nuclear Overhauser effect measurements on the complex. The shifts of the imino proton resonance positions provide information on the changes induced in the conformation of the operator upon complex formation with a dimer of the Cro protein. The most striking shift occurs for the central (GC 9) base pair, which is known to have no direct contacts with the Cro protein. This shift may be induced by a bend in the OR3 operator DNA at the GC 9 base pair to accommodate the operator for the binding of the Cro protein dimer. The imino proton resonances of two additional base pairs can be observed in the complex, demonstrating an overall stabilization of the DNA structure by the binding of the Cro protein.

MeSH Terms
Bacteriophage lambda/genetics Base Composition Base Sequence DNA-Binding Proteins Escherichia coli/genetics Magnetic Resonance Spectroscopy/methods Nucleic Acid Conformation Operon Repressor Proteins/genetics Transcription Factors/genetics Viral Proteins Viral Regulatory and Accessory Proteins
Chemicals
DNA-Binding Proteins Repressor Proteins Transcription Factors Viral Proteins Viral Regulatory and Accessory Proteins phage repressor proteins
Authors & Affiliations
8 authors, click to expand affiliations / ORCID
Kirpichnikov M P
Hahn K D
Buck F
Rüterjans H
Chernov B K
Kurochkin A V
Skryabin K G
Bayev A A
References (32)
32 references, click to expand
  1. Intermolecular nuclear shielding due to the aromatic amino acids of proteins and to porphyrins.
    J Theor Biol. 1971 May;31(2):287-94 PMID: 5557080
  2. Gene regulation at the right operator (OR) bacteriophage lambda. I. OR3 and autogenous negative control by repressor.
    J Mol Biol. 1980 May 15;139(2):147-61 PMID: 6447794
  3. Ethidium bromide-(dC-dG-dC-dG)2 complex in solution: intercalation and sequence specificity of drug binding at the tetranucleotide duplex level.
    Proc Natl Acad Sci U S A. 1976 Oct;73(10):3343-7 PMID: 1068447
  4. Mechanism of action of the cro protein of bacteriophage lambda.
    Proc Natl Acad Sci U S A. 1978 Apr;75(4):1783-7 PMID: 273909
  5. Interactions between DNA-bound repressors govern regulation by the lambda phage repressor.
    Proc Natl Acad Sci U S A. 1979 Oct;76(10):5061-5 PMID: 159452
  6. How the lambda repressor and cro work.
    Cell. 1980 Jan;19(1):1-11 PMID: 6444544
  7. Gene regulation at the right operator (OR) of bacteriophage lambda. II. OR1, OR2, and OR3: their roles in mediating the effects of repressor and cro.
    J Mol Biol. 1980 May 15;139(2):163-94 PMID: 6447795
  8. Gene regulation at the right operator (OR) of bacteriophage lambda. III. lambda repressor directly activates gene transcription.
    J Mol Biol. 1980 May 15;139(2):195-205 PMID: 6447796
  9. The lysis-lysogeny decision of phage lambda: explicit programming and responsiveness.
    Annu Rev Genet. 1980;14:399-445 PMID: 6452089
  10. Interactions of oligopeptides with nucleic acids.
    CRC Crit Rev Biochem. 1981;10(3):213-58 PMID: 6260429
  11. Structure of catabolite gene activator protein at 2.9 A resolution suggests binding to left-handed B-DNA.
    Nature. 1981 Apr 30;290(5809):744-9 PMID: 6261152
  12. Structure of the cro repressor from bacteriophage lambda and its interaction with DNA.
    Nature. 1981 Apr 30;290(5809):754-8 PMID: 6452580
  13. Environment of ribothymidine in transfer ribonucleic acid studied by means of nuclear Overhauser effect.
    Biochemistry. 1981 Apr 14;20(8):2133-40 PMID: 7016173
  14. lambda Repressor and cro--components of an efficient molecular switch.
    Nature. 1981 Nov 19;294(5838):217-23 PMID: 6457992
  15. Lac repressor - lac operator interaction. Circular dichroism study.
    Nucleic Acids Res. 1981 Oct 10;9(19):5175-84 PMID: 6273795
  16. Structure of the DNA-binding region of lac repressor inferred from its homology with cro repressor.
    Proc Natl Acad Sci U S A. 1982 Mar;79(5):1428-32 PMID: 6951187
  17. The operator-binding domain of lambda repressor: structure and DNA recognition.
    Nature. 1982 Jul 29;298(5873):443-7 PMID: 7088190
  18. Homology among DNA-binding proteins suggests use of a conserved super-secondary structure.
    Nature. 1982 Jul 29;298(5873):447-51 PMID: 6896364
  19. The molecular basis of DNA-protein recognition inferred from the structure of cro repressor.
    Nature. 1982 Aug 19;298(5876):718-23 PMID: 6213863
  20. cI and lexA repressors consist of three cro-like domains.
    FEBS Lett. 1982 Oct 4;147(1):11-5 PMID: 6216121
  21. Recent developments in the chemical synthesis of polynucleotides.
    Nucleic Acids Res. 1982 Nov 11;10(21):6553-70 PMID: 6757865
  22. Nuclear magnetic resonance studies on yeast tRNAPhe I. Assignment of the iminoproton resonances of the acceptor and D stem by means of Nuclear Overhauser Effect experiments at 500 MHz.
    Nucleic Acids Res. 1982 Nov 11;10(21):6981-7000 PMID: 6757870
  23. Studies of the structure of bacteriophage lambda cro protein in solution. Analysis of the aromatic region of the 1H NMR spectrum.
    FEBS Lett. 1982 Dec 27;150(2):407-10 PMID: 6219002
  24. Studies of the structure of bacteriophage lambda cro protein in solution. Globular structure of cro protein.
    FEBS Lett. 1982 Dec 27;150(2):411-5 PMID: 6219003
  25. lac Repressor headpiece binds specifically to half of the lac operator: a proton nuclear magnetic resonance study.
    Biochemistry. 1983 Jan 4;22(1):228-35 PMID: 6338916
  26. lambda Phage cro repressor interaction with DNA.
    J Biol Chem. 1983 Apr 10;258(7):4177-83 PMID: 6220002
  27. NMR study of the interaction between the lac repressor and the lac operator.
    Eur J Biochem. 1983 May 2;132(2):321-7 PMID: 6341060
  28. Studies of the structure of bacteriophage lambda cro protein in solution. Analysis of the circular dichroism data.
    FEBS Lett. 1983 May 8;155(2):291-4 PMID: 6221942
  29. Sequence-specific recognition of deoxyribonucleic acid. Chemical synthesis and nuclear magnetic resonance assignment of the imino protons of lambda OR3 operator deoxyribonucleic acid.
    Biochemistry. 1983 Jun 21;22(13):3037-41 PMID: 6309214
  30. Imino proton assignments in the proton nuclear magnetic resonance spectrum of the lambda phage OR3 deoxyribonucleic acid fragment.
    Biochemistry. 1983 Sep 13;22(19):4362-5 PMID: 6226312
  31. A random-walk model for helix bending in B-DNA.
    Proc Natl Acad Sci U S A. 1983 Dec;80(23):7099-103 PMID: 6580629
  32. Autoregulation and function of a repressor in bacteriophage lambda.
    Science. 1976 Oct 8;194(4261):156-61 PMID: 959843
Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
0305-1048
DOI
10.1093/nar/12.8.3551
Published
1984-04-25
Pages
3551-61
Language
English
Region
England
NLM ID
0411011
PMCID
PMC318768
Subset
IM
External Links
PubMed source DOI: 10.1093/nar/12.8.3551 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: [email protected]

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