메뉴 건너뛰기




Volumn 271, Issue 2, 1997, Pages 178-194

Quantitative specificity of the Mnt repressor

Author keywords

DNA protein interaction; DNA protein specificity; Information content; Mnt protein; Quantitative DNA sequencing

Indexed keywords

ARTICLE; BACTERIOPHAGE P22; BINDING AFFINITY; DNA SEQUENCE; MATHEMATICAL ANALYSIS; NONHUMAN; OPERATOR GENE; PRIORITY JOURNAL; PROTEIN DNA BINDING; SALMONELLA;

EID: 0031571660     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1997.1171     Document Type: Article
Times cited : (83)

References (46)
  • 2
    • 0023147228 scopus 로고
    • Selection of DNA binding sites by regulatory proteins. Statistical-mechanical theory and application to operators and promoters
    • Berg O. G., von Hippel P. H. Selection of DNA binding sites by regulatory proteins. Statistical-mechanical theory and application to operators and promoters. J. Mol. Biol. 193:1987;723-750.
    • (1987) J. Mol. Biol. , vol.193 , pp. 723-750
    • Berg, O.G.1    Von Hippel, P.H.2
  • 3
    • 0023894726 scopus 로고
    • Selection of DNA binding sites by regulatory proteins. II. The binding specificity of cyclic AMP receptor protein to recognition sites
    • Berg O. G., von Hippel P. H. Selection of DNA binding sites by regulatory proteins. II. The binding specificity of cyclic AMP receptor protein to recognition sites. J. Mol. Biol. 200:1988;709-723.
    • (1988) J. Mol. Biol. , vol.200 , pp. 709-723
    • Berg, O.G.1    Von Hippel, P.H.2
  • 4
    • 0031042082 scopus 로고    scopus 로고
    • Physical basis of a protein-DNA recognition code
    • Choo Y., Klug A. Physical basis of a protein-DNA recognition code. Curr. Opin. Struct. Biol. 7:1997;117-125.
    • (1997) Curr. Opin. Struct. Biol. , vol.7 , pp. 117-125
    • Choo, Y.1    Klug, A.2
  • 5
    • 0028081691 scopus 로고
    • Length-encoded multiplex binding site determination: Application to zinc finger proteins
    • Desjarlais J. R., Berg J. M. Length-encoded multiplex binding site determination: application to zinc finger proteins. Proc. Natl Acad. Sci. USA. 91:1994;11099-11103.
    • (1994) Proc. Natl Acad. Sci. USA , vol.91 , pp. 11099-11103
    • Desjarlais, J.R.1    Berg, J.M.2
  • 6
    • 0025456364 scopus 로고
    • An effective method for eliminating "artifact banding" when sequencing double-stranded DNA templates
    • Fawcett T. W., Bartlett S. G. An effective method for eliminating "artifact banding" when sequencing double-stranded DNA templates. BioTechniques. 9(1):1990;46-48.
    • (1990) BioTechniques , vol.91 , pp. 46-48
    • Fawcett, T.W.1    Bartlett, S.G.2
  • 8
    • 0028263794 scopus 로고
    • Quantitative DNA sequencing to determine the relative protein-DNA binding constants to multiple DNA sequences
    • Fields D. S., Stormo G. D. Quantitative DNA sequencing to determine the relative protein-DNA binding constants to multiple DNA sequences. Anal. Biochem. 219:1994;230-239.
    • (1994) Anal. Biochem. , vol.219 , pp. 230-239
    • Fields, D.S.1    Stormo, G.D.2
  • 9
    • 0028568951 scopus 로고
    • Molecular sequestration stabilizes CAP-DNA complexes during polyacrylamide gel electrophoresis
    • Fried M. G., Liu G. Molecular sequestration stabilizes CAP-DNA complexes during polyacrylamide gel electrophoresis. Nucl. Acids Res. 22:1994;5054-5059.
    • (1994) Nucl. Acids Res. , vol.22 , pp. 5054-5059
    • Fried, M.G.1    Liu, G.2
  • 10
    • 0011085703 scopus 로고
    • Variation in band intensities in DNA sequencing
    • Fuller C. W. Variation in band intensities in DNA sequencing. US Biochem. Edit. Comments. 16(3):1989;1-8.
    • (1989) US Biochem. Edit. Comments , vol.163 , pp. 1-8
    • Fuller, C.W.1
  • 11
    • 0029031094 scopus 로고
    • Oligonucleotides as research, diagnostic, and therapeutic agents
    • Gold L. Oligonucleotides as research, diagnostic, and therapeutic agents. J. Biol. Chem. 270:1995;13581-13584.
    • (1995) J. Biol. Chem. , vol.270 , pp. 13581-13584
    • Gold, L.1
  • 14
    • 0025372992 scopus 로고
    • Identification of consensus patterns in unaligned DNA sequences known to be functionally related
    • Hertz G. Z., Hartzell G. W., Stormo G. D. Identification of consensus patterns in unaligned DNA sequences known to be functionally related. Comput. Appl. Biosci. 6:1990;81-92.
    • (1990) Comput. Appl. Biosci. , vol.6 , pp. 81-92
    • Hertz, G.Z.1    Hartzell, G.W.2    Stormo, G.D.3
  • 15
    • 0026325728 scopus 로고
    • Systematic evolution of ligands by exponential enrichment with integrated optimization by non-linear analysis
    • Irvine D., Tuerk C., Gold L. Systematic evolution of ligands by exponential enrichment with integrated optimization by non-linear analysis. J. Mol. Biol. 222:1991;739-761.
    • (1991) J. Mol. Biol. , vol.222 , pp. 739-761
    • Irvine, D.1    Tuerk, C.2    Gold, L.3
  • 16
    • 0024294307 scopus 로고
    • The Mnt repressor of bacteriophage P22: Role of C-terminal residues in operator binding and tetramer formation
    • Knight K. L., Sauer R. T. The Mnt repressor of bacteriophage P22: role of C-terminal residues in operator binding and tetramer formation. Biochemistry. 27:1988;2088-2094.
    • (1988) Biochemistry , vol.27 , pp. 2088-2094
    • Knight, K.L.1    Sauer, R.T.2
  • 17
    • 0024340022 scopus 로고
    • Identification of functionally important residues in the DNA binding region of the Mnt repressor
    • Knight K. L., Sauer R. T. Identification of functionally important residues in the DNA binding region of the Mnt repressor. J. Biol. Chem. 264:1989a;13706-13710.
    • (1989) J. Biol. Chem. , vol.264 , pp. 13706-13710
    • Knight, K.L.1    Sauer, R.T.2
  • 18
    • 0024552617 scopus 로고
    • DNA binding specificity of the Arc and Mnt repressors is determined by a short region of N-terminal residues
    • Knight K. L., Sauer R. T. DNA binding specificity of the Arc and Mnt repressors is determined by a short region of N-terminal residues. Proc. Natl Acad. Sci. USA. 86:1989b;797-801.
    • (1989) Proc. Natl Acad. Sci. USA , vol.86 , pp. 797-801
    • Knight, K.L.1    Sauer, R.T.2
  • 19
    • 0026542574 scopus 로고
    • Biochemical and genetic analysis of operator contacts made by residues within the β-sheet DNA binding motif of Mnt repressor
    • Knight K. L., Sauer R. T. Biochemical and genetic analysis of operator contacts made by residues within the β-sheet DNA binding motif of Mnt repressor. EMBO J. 11:1992;215-223.
    • (1992) EMBO J. , vol.11 , pp. 215-223
    • Knight, K.L.1    Sauer, R.T.2
  • 20
    • 0023687419 scopus 로고
    • DNA twisting and the affinity of bacteriophage 434 operator for bacteriophage 434 repressor
    • Koudelka G. B., Harbury P., Harrison S. C., Ptashne M. DNA twisting and the affinity of bacteriophage 434 operator for bacteriophage 434 repressor. Proc. Natl Acad. Sci. USA. 85:1988;4633-4637.
    • (1988) Proc. Natl Acad. Sci. USA , vol.85 , pp. 4633-4637
    • Koudelka, G.B.1    Harbury, P.2    Harrison, S.C.3    Ptashne, M.4
  • 22
    • 0011123270 scopus 로고
    • An expectation maximization (EM) algorithm for the identification and characterization of common sites in unaligned biopolymer sequences
    • Lawrence C. E., Reilly A. A. An expectation maximization (EM) algorithm for the identification and characterization of common sites in unaligned biopolymer sequences. Proteins: Struct. Funct. Genet. 6:1990;1219-1229.
    • (1990) Proteins: Struct. Funct. Genet. , vol.6 , pp. 1219-1229
    • Lawrence, C.E.1    Reilly, A.A.2
  • 23
    • 0028822256 scopus 로고
    • Consistencies of individual DNA base-amino acid interactions in structures and sequences
    • Lustig B., Jernigan R. L. Consistencies of individual DNA base-amino acid interactions in structures and sequences. Nucl. Acids. Res. 23:1995;4707-4711.
    • (1995) Nucl. Acids. Res. , vol.23 , pp. 4707-4711
    • Lustig, B.1    Jernigan, R.L.2
  • 24
    • 0028839860 scopus 로고
    • Comprehensive analysis of hydrogen bonds in regulatory protein DNA-complexes: In search of common principles
    • Mandel-Gutfreund Y., Schueler O., Margalit H. Comprehensive analysis of hydrogen bonds in regulatory protein DNA-complexes: in search of common principles. J. Mol. Biol. 253:1995;370-382.
    • (1995) J. Mol. Biol. , vol.253 , pp. 370-382
    • Mandel-Gutfreund, Y.1    Schueler, O.2    Margalit, H.3
  • 25
    • 0028921122 scopus 로고
    • Structure and function of DNA-binding proteins
    • Nelson H. C. M. Structure and function of DNA-binding proteins. Curr. Opin. Genet. Dev. 5:1995;180-189.
    • (1995) Curr. Opin. Genet. Dev. , vol.5 , pp. 180-189
    • Nelson, H.C.M.1
  • 26
    • 0026682657 scopus 로고
    • Transcription factors: Structural families and principles of DNA recognition
    • Pabo C. O., Sauer R. T. Transcription factors: structural families and principles of DNA recognition. Annu. Rev. Biochem. 61:1992;1053-1095.
    • (1992) Annu. Rev. Biochem. , vol.61 , pp. 1053-1095
    • Pabo, C.O.1    Sauer, R.T.2
  • 29
    • 0029608731 scopus 로고
    • The histone fold: Evolutionary questions
    • Ramakrishnan V. The histone fold: evolutionary questions. Proc. Natl Acad. Sci. USA. 92:1995;11328-11330.
    • (1995) Proc. Natl Acad. Sci. USA , vol.92 , pp. 11328-11330
    • Ramakrishnan, V.1
  • 30
    • 0028147466 scopus 로고
    • Major groove DNA recognition by β-sheets: The ribbon-helix-helix family of gene regulatory proteins
    • Raumann B. E., Brown B. M., Sauer R. T. Major groove DNA recognition by β-sheets: the ribbon-helix-helix family of gene regulatory proteins. Curr. Opin. Struct. Biol. 4:1994;36-43.
    • (1994) Curr. Opin. Struct. Biol. , vol.4 , pp. 36-43
    • Raumann, B.E.1    Brown, B.M.2    Sauer, R.T.3
  • 31
    • 0028843773 scopus 로고
    • Dramatic changes in DNA-binding specificity caused by single residue substitutions in an Arc/Mnt hybrid repressor
    • Raumann B. E., Knight K. L., Sauer R. T. Dramatic changes in DNA-binding specificity caused by single residue substitutions in an Arc/Mnt hybrid repressor. Nature Struct. Biol. 2:1995;1115-1122.
    • (1995) Nature Struct. Biol. , vol.2 , pp. 1115-1122
    • Raumann, B.E.1    Knight, K.L.2    Sauer, R.T.3
  • 33
    • 0000058799 scopus 로고
    • Lambda repressor recognizes the approximately 2-fold symmetric half-operator sequences asymmetrically
    • Sarai A., Takeda Y. Lambda repressor recognizes the approximately 2-fold symmetric half-operator sequences asymmetrically. Proc. Natl Acad. Sci. USA. 86:1989;6513-6517.
    • (1989) Proc. Natl Acad. Sci. USA , vol.86 , pp. 6513-6517
    • Sarai, A.1    Takeda, Y.2
  • 34
    • 0023042012 scopus 로고
    • Information content of binding sites on nucleotide sequences
    • Schneider T. D., Stormo G. D., Gold L., Ehrenfeucht A. Information content of binding sites on nucleotide sequences. J. Mol. Biol. 188:1986;415-431.
    • (1986) J. Mol. Biol. , vol.188 , pp. 415-431
    • Schneider, T.D.1    Stormo, G.D.2    Gold, L.3    Ehrenfeucht, A.4
  • 35
    • 0031047683 scopus 로고    scopus 로고
    • The role of water in protein-DNA interactions
    • Schwabe J. W. R. The role of water in protein-DNA interactions. Curr. Opin. Struct. Biol. 7:1997;126-134.
    • (1997) Curr. Opin. Struct. Biol. , vol.7 , pp. 126-134
    • Schwabe, J.W.R.1
  • 39
    • 0011087444 scopus 로고
    • Probing the information content of DNA binding sites
    • R.T. Sauer. Academic Press, New York and London
    • Stormo G. D. Probing the information content of DNA binding sites. Sauer R. T. Protein-DNA Interactions, Methods in Enzymology. 1991;Academic Press, New York and London.
    • (1991) Protein-DNA Interactions, Methods in Enzymology
    • Stormo, G.D.1
  • 40
    • 0026077562 scopus 로고
    • Specificity of the Mnt protein determined by binding to randomized operators
    • Stormo G. D., Yoshioka M. Specificity of the Mnt protein determined by binding to randomized operators. Proc. Natl Acad. Sci. USA. 88:1991;5699-5703.
    • (1991) Proc. Natl Acad. Sci. USA , vol.88 , pp. 5699-5703
    • Stormo, G.D.1    Yoshioka, M.2
  • 41
    • 0027538479 scopus 로고
    • Specificity of the Mnt protein: Independent effects of mutations at different positions in the operator
    • Stormo G. D., Strobl S., Yoshioka M., Lee J. S. Specificity of the Mnt protein: independent effects of mutations at different positions in the operator. J. Mol. Biol. 229:1993;821-826.
    • (1993) J. Mol. Biol. , vol.229 , pp. 821-826
    • Stormo, G.D.1    Strobl, S.2    Yoshioka, M.3    Lee, J.S.4
  • 42
    • 0028609064 scopus 로고
    • DNA recognition code of transcription factors in the helix-turn-helix, probe helix, hormone receptor, and zinc finger families
    • Suzuki M., Yagi N. DNA recognition code of transcription factors in the helix-turn-helix, probe helix, hormone receptor, and zinc finger families. Proc. Natl Acad. Sci. USA. 91:1994;12357-12361.
    • (1994) Proc. Natl Acad. Sci. USA , vol.91 , pp. 12357-12361
    • Suzuki, M.1    Yagi, N.2
  • 43
    • 0005830941 scopus 로고
    • Analysis of the sequence-specific interactions between Cro repressor and operator DNA by systematic base substitution experiments
    • Takeda Y., Sarai A., Rivera V. M. Analysis of the sequence-specific interactions between Cro repressor and operator DNA by systematic base substitution experiments. Proc. Natl Acad. Sci. USA. 86:1989;439-443.
    • (1989) Proc. Natl Acad. Sci. USA , vol.86 , pp. 439-443
    • Takeda, Y.1    Sarai, A.2    Rivera, V.M.3
  • 44
    • 0025194307 scopus 로고
    • Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase
    • Tuerk C., Gold L. Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase. Science. 249:1990;505-510.
    • (1990) Science , vol.249 , pp. 505-510
    • Tuerk, C.1    Gold, L.2
  • 45
    • 0023660373 scopus 로고
    • Bacteriophage P22 Mnt repressor: DNA binding and effects on transcriptionin vitro
    • Vershon A. K., Liao S. M., McClure W. R., Sauer R. T. Bacteriophage P22 Mnt repressor: DNA binding and effects on transcriptionin vitro. J. Mol. Biol. 195:1987;311-322.
    • (1987) J. Mol. Biol. , vol.195 , pp. 311-322
    • Vershon, A.K.1    Liao, S.M.2    McClure, W.R.3    Sauer, R.T.4
  • 46
    • 0028877371 scopus 로고
    • Domains of Mnt repressor: Roles in tetramer formation, protein stability, and operator DNA binding
    • Waldburger C. D., Sauer R. T. Domains of Mnt repressor: roles in tetramer formation, protein stability, and operator DNA binding. Biochemistry. 34:1995;13109-13116.
    • (1995) Biochemistry , vol.34 , pp. 13109-13116
    • Waldburger, C.D.1    Sauer, R.T.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.