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Volumn 331, Issue 2, 2004, Pages 303-313

Protein microarray technology and ultraviolet crosslinking combined with mass spectrometry for the analysis of protein-DNA interactions

Author keywords

DnaA box; DnaA domain 4; Fluorescence detection; NanoLC MALDI TOF MS; Protein microarray technology

Indexed keywords

CRYSTAL STRUCTURE; DNA; ESCHERICHIA COLI; MASS SPECTROMETRY; NUCLEAR MAGNETIC RESONANCE; OLIGONUCLEOTIDES; TRANSCRIPTION;

EID: 3242721259     PISSN: 00032697     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ab.2004.05.008     Document Type: Article
Times cited : (28)

References (39)
  • 1
    • 0024462061 scopus 로고
    • In vivo studies of DnaA binding to the origin of replication of Escherichia coli
    • Samitt C.E., Hansen F.G., Miller J.F., Schaechter M. In vivo studies of DnaA binding to the origin of replication of Escherichia coli. EMBO J. 8:1989;989-993
    • (1989) EMBO J. , vol.8 , pp. 989-993
    • Samitt, C.E.1    Hansen, F.G.2    Miller, J.F.3    Schaechter, M.4
  • 3
    • 0034714091 scopus 로고    scopus 로고
    • Examination of the transcription factor NtcA-binding motif by in vitro selection of DNA sequences from a random library
    • Jiang F., Wisen S., Widersten M., Bergman B., Mannervik B. Examination of the transcription factor NtcA-binding motif by in vitro selection of DNA sequences from a random library. J. Mol. Biol. 301:2000;783-793
    • (2000) J. Mol. Biol. , vol.301 , pp. 783-793
    • Jiang, F.1    Wisen, S.2    Widersten, M.3    Bergman, B.4    Mannervik, B.5
  • 4
    • 0033028741 scopus 로고    scopus 로고
    • Quantifying DNA-protein interactions by double-stranded DNA arrays
    • Bulyk M.L., Gentalen E., Lockhart D.J., Church G.M. Quantifying DNA-protein interactions by double-stranded DNA arrays. Nat. Biotechnol. 17:1999;573-577
    • (1999) Nat. Biotechnol. , vol.17 , pp. 573-577
    • Bulyk, M.L.1    Gentalen, E.2    Lockhart, D.J.3    Church, G.M.4
  • 6
    • 0034016324 scopus 로고    scopus 로고
    • Analysis of the DNA-binding domain of Escherichia coli DnaA protein
    • Blaesing F., Weigel C., Welzeck M., Messer W. Analysis of the DNA-binding domain of Escherichia coli DnaA protein. Mol. Microbiol. 36:2000;557-569
    • (2000) Mol. Microbiol. , vol.36 , pp. 557-569
    • Blaesing, F.1    Weigel, C.2    Welzeck, M.3    Messer, W.4
  • 7
    • 0035012828 scopus 로고    scopus 로고
    • Development of single-chain Fv fragments from a human anti-double-stranded DNA antibody to study the influence of somatic mutations on antigen binding
    • Kersten B., Niemann B., Jahn S. Development of single-chain Fv fragments from a human anti-double-stranded DNA antibody to study the influence of somatic mutations on antigen binding. Exp. Clin. Immunogenet. 18:2001;96-99
    • (2001) Exp. Clin. Immunogenet. , vol.18 , pp. 96-99
    • Kersten, B.1    Niemann, B.2    Jahn, S.3
  • 10
    • 0034651008 scopus 로고    scopus 로고
    • UPA, a universal protein array system for quantitative detection of protein-protein, protein-DNA, protein-RNA, and protein-ligand interactions
    • Ge H. UPA, a universal protein array system for quantitative detection of protein-protein, protein-DNA, protein-RNA, and protein-ligand interactions. Nucleic Acids Res. 28:2000;e3
    • (2000) Nucleic Acids Res. , vol.28 , pp. 3
    • Ge, H.1
  • 11
    • 0037879150 scopus 로고    scopus 로고
    • Dissecting DNA-protein and protein-protein interactions involved in bacterial transcriptional regulation by a sensitive protein array method combining a near-infrared fluorescence detection
    • Snapyan M., Lecocq M., Guevel L., Arnaud M.C., Ghochikyan A., Sakanyan V. Dissecting DNA-protein and protein-protein interactions involved in bacterial transcriptional regulation by a sensitive protein array method combining a near-infrared fluorescence detection. Proteomics. 3:2003;647-657
    • (2003) Proteomics , vol.3 , pp. 647-657
    • Snapyan, M.1    Lecocq, M.2    Guevel, L.3    Arnaud, M.C.4    Ghochikyan, A.5    Sakanyan, V.6
  • 13
    • 0021720088 scopus 로고
    • The DnaA protein complex with the E. coli chromosomal replication origin (oriC ) and other DNA sites
    • Fuller R.S., Funnell B.E., Kornberg A. The DnaA protein complex with the E. coli chromosomal replication origin (oriC ) and other DNA sites. Cell. 38:1984;889-900
    • (1984) Cell , vol.38 , pp. 889-900
    • Fuller, R.S.1    Funnell, B.E.2    Kornberg, A.3
  • 14
    • 0030888558 scopus 로고    scopus 로고
    • DnaA initiator: Also a transcription factor
    • Messer W., Weigel C. DnaA initiator: also a transcription factor. Mol. Microbiol. 24:1997;1-6
    • (1997) Mol. Microbiol. , vol.24 , pp. 1-6
    • Messer, W.1    Weigel, C.2
  • 15
    • 0347381285 scopus 로고    scopus 로고
    • DnaA as a transcription regulator
    • Messer W., Weigel C. DnaA as a transcription regulator. Meth. Enzymol. 370:2003;338-349
    • (2003) Meth. Enzymol. , vol.370 , pp. 338-349
    • Messer, W.1    Weigel, C.2
  • 16
    • 0026045414 scopus 로고
    • Structure and function of DnaA and the DnaA-box in eubacteria: Evolutionary relationships of bacterial replication origins
    • Yoshikawa H., Ogasawara N. Structure and function of DnaA and the DnaA-box in eubacteria: Evolutionary relationships of bacterial replication origins. Mol. Microbiol. 5:1991;2589-2597
    • (1991) Mol. Microbiol. , vol.5 , pp. 2589-2597
    • Yoshikawa, H.1    Ogasawara, N.2
  • 17
    • 0025855233 scopus 로고
    • DnaA protein/DNA interaction: Modulation of the recognition sequence
    • Schaefer C., Messer W. DnaA protein/DNA interaction: modulation of the recognition sequence. Mol. Gen. Genet. 226:1991;34-40
    • (1991) Mol. Gen. Genet. , vol.226 , pp. 34-40
    • Schaefer, C.1    Messer, W.2
  • 18
    • 0029088758 scopus 로고
    • Interaction of the initiator protein DnaA of Escherichia coli with its DNA target
    • Schaper S., Messer W. Interaction of the initiator protein DnaA of Escherichia coli with its DNA target. J. Biol. Chem. 270:1995;17622-17626
    • (1995) J. Biol. Chem. , vol.270 , pp. 17622-17626
    • Schaper, S.1    Messer, W.2
  • 19
    • 0030854615 scopus 로고    scopus 로고
    • From footprint to toeprint: A close-up of the DnaA box, the binding site for the bacterial initiator protein DnaA
    • Speck C., Weigel C., Messer W. From footprint to toeprint: a close-up of the DnaA box, the binding site for the bacterial initiator protein DnaA. Nucleic Acids Res. 25:1997;3242-3247
    • (1997) Nucleic Acids Res. , vol.25 , pp. 3242-3247
    • Speck, C.1    Weigel, C.2    Messer, W.3
  • 20
    • 0026515473 scopus 로고
    • Structure of the DnaA and DnaA-box region in the Mycoplasma capricolum chromosome: Conservation and variations in the course of evolution
    • Fujita M.Q., Yoshikawa H., Ogasawara N. Structure of the DnaA and DnaA-box region in the Mycoplasma capricolum chromosome: conservation and variations in the course of evolution. Gene. 110:1992;17-23
    • (1992) Gene , vol.110 , pp. 17-23
    • Fujita, M.Q.1    Yoshikawa, H.2    Ogasawara, N.3
  • 22
    • 0029030019 scopus 로고
    • The DNA binding domain of the initiator protein DnaA
    • Roth A., Messer W. The DNA binding domain of the initiator protein DnaA. EMBO J. 14:1995;2106-2111
    • (1995) EMBO J. , vol.14 , pp. 2106-2111
    • Roth, A.1    Messer, W.2
  • 23
    • 0032212208 scopus 로고    scopus 로고
    • A method for global protein expression and antibody screening on high-density filters of an arrayed cDNA library
    • Bussow K., Cahill D., Nietfeld W., Bancroft D., Scherzinger E., Lehrach H., Walter G. A method for global protein expression and antibody screening on high-density filters of an arrayed cDNA library. Nucleic Acids Res. 26:1998;5007-5008
    • (1998) Nucleic Acids Res. , vol.26 , pp. 5007-5008
    • Bussow, K.1    Cahill, D.2    Nietfeld, W.3    Bancroft, D.4    Scherzinger, E.5    Lehrach, H.6    Walter, G.7
  • 24
    • 0021081961 scopus 로고
    • Yeast RNA polymerase II genes: Isolation with antibody probes
    • Young R.A., Davis R.W. Yeast RNA polymerase II genes: isolation with antibody probes. Science. 222:1983;778-782
    • (1983) Science , vol.222 , pp. 778-782
    • Young, R.A.1    Davis, R.W.2
  • 25
    • 0024825088 scopus 로고
    • High-level expression of recombinant genes in Escherichia coli is dependent on the availability of the DnaY gene product
    • Brinkmann U., Mattes R.E., Buckel P. High-level expression of recombinant genes in Escherichia coli is dependent on the availability of the DnaY gene product. Gene. 85:1989;109-114
    • (1989) Gene , vol.85 , pp. 109-114
    • Brinkmann, U.1    Mattes, R.E.2    Buckel, P.3
  • 27
    • 0035253337 scopus 로고    scopus 로고
    • Alpha-cyano-4-hydroxycinnamic acid affinity sample preparation: A protocol for MALDI-MS peptide analysis in proteomics
    • Gobom J., Schuerenberg M., Mueller M., Theiss D., Lehrach H., Nordhoff E. Alpha-cyano-4-hydroxycinnamic acid affinity sample preparation: A protocol for MALDI-MS peptide analysis in proteomics. Anal. Chem. 73:2001;434-438
    • (2001) Anal. Chem. , vol.73 , pp. 434-438
    • Gobom, J.1    Schuerenberg, M.2    Mueller, M.3    Theiss, D.4    Lehrach, H.5    Nordhoff, E.6
  • 28
    • 0036683169 scopus 로고    scopus 로고
    • A calibration method that simplifies and improves accurate determination of peptide molecular masses by MALDI-TOF MS
    • Gobom J., Mueller M., Egelhofer V., Theiss D., Lehrach H., Nordhoff E. A calibration method that simplifies and improves accurate determination of peptide molecular masses by MALDI-TOF MS. Anal. Chem. 74:2002;3915-3923
    • (2002) Anal. Chem. , vol.74 , pp. 3915-3923
    • Gobom, J.1    Mueller, M.2    Egelhofer, V.3    Theiss, D.4    Lehrach, H.5    Nordhoff, E.6
  • 30
    • 0141637388 scopus 로고    scopus 로고
    • Identification of the region in Escherichia coli DnaA protein required for specific recognition of the DnaA box
    • Yoshida Y., Obita T., Kokusho Y., Ohmura T., Katayama T., Ueda T., Imoto T. Identification of the region in Escherichia coli DnaA protein required for specific recognition of the DnaA box. Cell. Mol. Life Sci. 60:2003;1998-2008
    • (2003) Cell. Mol. Life Sci. , vol.60 , pp. 1998-2008
    • Yoshida, Y.1    Obita, T.2    Kokusho, Y.3    Ohmura, T.4    Katayama, T.5    Ueda, T.6    Imoto, T.7
  • 31
    • 0043125601 scopus 로고    scopus 로고
    • Next generation of protein microarray support materials: Evaluation for protein and antibody microarray applications
    • Angenendt P., Glökler J., Sobek J., Lehrach H., Cahill D.J. Next generation of protein microarray support materials: evaluation for protein and antibody microarray applications. J. Chromatogr. A. 1009:2003;97-104
    • (2003) J. Chromatogr. a , vol.1009 , pp. 97-104
    • Angenendt, P.1    Glökler, J.2    Sobek, J.3    Lehrach, H.4    Cahill, D.J.5
  • 33
    • 0036629196 scopus 로고    scopus 로고
    • Protein microarrays to detect protein-protein interactions using red and green fluorescent proteins
    • Kukar T., Eckenrode S., Gu Y., Lian W., Megginson M., She J.X., Wu D. Protein microarrays to detect protein-protein interactions using red and green fluorescent proteins. Anal. Biochem. 306:2002;50-54
    • (2002) Anal. Biochem. , vol.306 , pp. 50-54
    • Kukar, T.1    Eckenrode, S.2    Gu, Y.3    Lian, W.4    Megginson, M.5    She, J.X.6    Wu, D.7
  • 34
    • 0028867701 scopus 로고
    • Cell cycle-specific changes in nucleoprotein complexes at a chromosomal replication origin
    • Cassler M.R., Grimwade J.E., Leonard A.C. Cell cycle-specific changes in nucleoprotein complexes at a chromosomal replication origin. EMBO J. 14:1995;5833-5841
    • (1995) EMBO J. , vol.14 , pp. 5833-5841
    • Cassler, M.R.1    Grimwade, J.E.2    Leonard, A.C.3
  • 35
    • 0030728450 scopus 로고    scopus 로고
    • DnaA protein binding to individual DnaA boxes in the Escherichia coli replication origin, oriC
    • Weigel C., Schmidt A., Ruckert B., Lurz R., Messer W. DnaA protein binding to individual DnaA boxes in the Escherichia coli replication origin, oriC. EMBO J. 16:1997;6574-6583
    • (1997) EMBO J. , vol.16 , pp. 6574-6583
    • Weigel, C.1    Schmidt, A.2    Ruckert, B.3    Lurz, R.4    Messer, W.5
  • 36
    • 0034812113 scopus 로고    scopus 로고
    • Mass spectrometric analysis of a UV-cross-linked protein-DNA complex: Tryptophans 54 and 88 of E. coli SSB cross-link to DNA
    • Steen H., Petersen J., Mann M., Jensen O.N. Mass spectrometric analysis of a UV-cross-linked protein-DNA complex: Tryptophans 54 and 88 of E. coli SSB cross-link to DNA. Protein Sci. 10:2001;1989-2001
    • (2001) Protein Sci. , vol.10 , pp. 1989-2001
    • Steen, H.1    Petersen, J.2    Mann, M.3    Jensen, O.N.4
  • 37
    • 0036882288 scopus 로고    scopus 로고
    • Analysis of protein-nucleic acid interactions by photochemical cross-linking and mass spectrometry
    • Steen H., Jensen O.N. Analysis of protein-nucleic acid interactions by photochemical cross-linking and mass spectrometry. Mass Spectr. Rev. 21:2002;163-182
    • (2002) Mass Spectr. Rev. , vol.21 , pp. 163-182
    • Steen, H.1    Jensen, O.N.2
  • 39
    • 0030979415 scopus 로고    scopus 로고
    • Photocross-linking of nucleic acids to associated proteins
    • Meisenheimer K.M., Koch T.H. Photocross-linking of nucleic acids to associated proteins. Crit. Rev. Biochem. Mol. Biol. 32:1997;101-140
    • (1997) Crit. Rev. Biochem. Mol. Biol. , vol.32 , pp. 101-140
    • Meisenheimer, K.M.1    Koch, T.H.2


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