A cellular DNA-binding protein that activates eukaryotic transcription and DNA replication
CellPublished 1 January 1987
Katherine A. Jones, James T. Kadonaga, Philip J. Rosenfeld, Thomas J. Kelly, Robert Tjian
Citations1,050
SJR quartileQ1
SJR score22.61
SNIP7.62
Generate an AI Snapshot to get a quick, structured summary of this paper.
Study Snapshot
ObjectiveStudy objective
MethodsResearch methodology
PopulationPopulation studied
Sample sizeSample sizes
OutcomesStudy outcomes here
ResultsStudy results comes here
LimitationsResearch study limitations comes here
A concise AI-generated summary of the paper will appear here once you click Generate AI Snapshot.
TL;DR
It is concluded that CTF/NF-I can serve both as a transcription selectivity factor for RNA polymerase II and as an initiation factor for adenovirus DNA replication.
Abstract
Transcription factor CTF, which is responsible for selective recognition of eukaryotic promoters that contain the sequence CCAAT, was purified to apparent homogeneity by sequence-specific DNA affinity chromatography. Binding sites for CTF in the human Ha-ras and alpha-globin promoters were highly homologous to sequences recognized by nuclear factor I (NF-I), a cellular DNA-binding protein that is required for the initiation of adenovirus DNA replication in vitro. To determine the relationship between CTF and NF-I, we compared the biochemical properties of these two proteins. CTF and NF-I were found to be indistinguishable in polypeptide composition, DNA-binding properties, immunological cross-reactivity, and in vitro stimulation of DNA replication and transcription initiation. We conclude that CTF/NF-I can serve both as a transcription selectivity factor for RNA polymerase II and as an initiation factor for adenovirus DNA replication.
Keywords
Biochemistry, Genetics and Molecular Biology
Nucleic Acids ResearchEquilibria and kinetics of lac repressor-operator interactions by polyacrylamide gel electrophoresis
2,847 Citations1981Michael G. Fried, Donald M. Crothers
Gel electrophoresis in studies of equilibrium binding, site distribution, and kinetics of protein-DNA interactions found that binding to the so-called third operator site (03) is 15-18 fold weaker than operator binding, and that the binding reactions with the first and third operators are uncoupled, implying that there is no communication between the sites.
Nucleic Acids ResearchDNAase footprinting a simple method for the detection of protein-DNA binding specificity
2,120 Citations1978David J. Galas, Albert Schmitz
Nucleic Acids ResearchA gel electrophoresis method for quantifying the binding of proteins to specific DNA regions: application to components of the Escherichia coli lactose operon regulatory system
2,022 Citations1981Mark M. Garner, Arnold Revzin
It is demonstrated that even when pre-formed in the presence of CAP-cAMP, the polymerase-promoter open complex becomes unstable if CAP is then selectively removed, and this gel method is applied to the study of the E. coli lactose operon regulatory system.
SciencePurification and Biochemical Characterization of the Promoter-Specific Transcription Factor, Sp1
1,486 Citations1986Michael R. Briggs, James T. Kadonaga +2 more
Isolation and renaturation of proteins purified from sodium dodecyl sulfate polyacrylamide gels allowed the identification of two polypeptides as those responsible for recognizing and interacting specifically with the GC-box promoter elements characteristic of Sp1 binding sites.
Proceedings of the National Academy of SciencesAffinity purification of sequence-specific DNA binding proteins.
1,206 Citations1986James T. Kadonaga, Robert Tjian
This method provides a means for the purification of rare sequence-specific DNA binding proteins, such as Sp1 and CAAT-binding transcription factor, by using tandem affinity columns containing different protein binding sites.
NatureA nuclear factor that binds to a conserved sequence motif in transcriptional control elements of immunoglobulin genes
1,153 Citations1986Harinder Singh, Ranjan Sen +2 more
It is reported here the identification of a human B-cell nuclear factor (IgNF-A) that binds to DNA sequences in the upstream regions of both the mouse heavy and κ light-chain gene promoters and also to the mouseHeavychain gene enhancer.
ScienceB Lineage—Specific Interactions of an Immunoglobulin Enhancer with Cellular Factors in Vivo
860 Citations1985Anne Ephrussi, George M. Church +2 more
There are changes in the reactivity of guanine residues to dimethyl sulfate within the enhancer sequence in myeloma, B, and early B cells, whereas virtually no alterations appear in cells of non-B lineage.
CellTwo distinct transcription factors bind to the HSV thymidine kinase promoter in vitro
806 Citations1985Katherine A. Jones, Keith R. Yamamoto +1 more
An in vitro transcription system derived from uninfected HeLa cells that accurately initiates RNA synthesis at the herpes virus thymidine kinase (TK) promoter is characterized and three distinctive protein binding sites are identified.
CellIsolation of transcription factors that discriminate between different promoters recognized by RNA polymerase II
764 Citations1983William S. Dynan, Robert Tjian
Addition of the Sp1 factor stimulated SV40 early promoter transcription 40-fold, and inhibited adenovirus major late promoter transcription by 40%.
NatureCorrect transcription of an immunoglobulin κ gene requires an upstream fragment containing conserved sequence elements
645 Citations1984Falko G. Falkner, Hans G. Zachau
It is found that sequences between −90 and −160 base pairs upstream of the coding region are essential for correct transcription in gene transfer experiments and may be involved in the control of immunoglobulin gene transcription.
CellIdentification of DNA sequences required for transcription of the human α1-globin gene in a new SV40 host-vector system
622 Citations1981Pamela L. Mellon, Vann P. Parker +2 more
A rapid and simple method for studying the transcription of cloned eucaryotic genes is developed, which involves transfecting SV40-transformed monkey cell lines (COS cells) with derivatives of the plasmid pBR322 that contain the SV40 viral replication origin but lack regions necessary for viral transcription (SV-ORI vectors).
CellThree regions upstream from the cap site are required for efficient and accurate transcription of the rabbit β-globin gene in mouse 3T6 cells
591 Citations1983Peter M. Dierks, Albert van Ooyen +4 more
Cloned rabbit beta-globin genes, modified in vitro by restructuring or site-directed mutagenesis, were introduced into mouse 3T6 cells, and the resulting transcripts were analyzed by nuclease S1 mapping to find the first 109 bp preceding the cap site sufficed for maximal beta- globin transcription.
CellHomologous recognition of a promoter domain common to the MSV LTR and the HSV tk gene
565 Citations1986Barbara J. Graves, Peter F. Johnson +1 more
Assays in microinjected frog oocytes and transfected mouse L cells indicate that equivalent point mutations, introduced at each residue of the CAT pentanucleotide of each promoter, lead to similar changes in promoter activity and alter binding of the nuclear protein fraction.
Proceedings of the National Academy of SciencesStructure of the 5' ends of immunoglobulin genes: a novel conserved sequence.
563 Citations1984Tristram G. Parslow, D L Blair +2 more
Comparison of the sequence of the 70Z/3 kappa light chain gene with those encoding other immunoglobulin heavy and light chains has revealed that a distinctive promoter region structure is characteristic of this multigene family.
ScienceFine Structure Genetic Analysis of a β-Globin Promoter
473 Citations1986R Myers, Kit Tilly +1 more
The results precisely delineate the cis-acting sequences required for accurate and efficient initiation of beta-globin transcription, and they establish a general approach for the fine structure genetic analysis of eukaryotic regulatory sequences.
CellChromatin structure and protein binding in the putative regulatory region of the c-myc gene in burkitt lymphoma
440 Citations1984Ulrich Siebenlist, Lothar Hennighausen +2 more
Three hypersensitivity patterns emerge that correlate with the state of the gene and reveal sites associated with putative regulatory structures in the chromatin structure of these genes using DNAase I hypersensitivity in nonmalignant lymphoblastoid cells and in the Burkitt lymphoma, BL31.
Proceedings of the National Academy of SciencesAdenovirus DNA replication in vitro: identification of a host factor that stimulates synthesis of the preterminal protein-dCMP complex.
351 Citations1982Kyosuke Nagata, R A Guggenheimer +3 more
It is suggested that the initiation reaction observed with Ad DNA-prot in the absence of Ad DBP occurs at single-stranded DNA sites, creating a requirement for nuclear factor I in pTP-dCMP complex formation.
Journal of Biological ChemistryPurification of nuclear factor I by DNA recognition site affinity chromatography.
332 Citations1986Philip J. Rosenfeld, Thomas J. Kelly
Results suggest that NF-I exists as a globular monomer in solution, which is generally applicable to the purification of other site-specific DNA binding proteins.
Proceedings of the National Academy of SciencesSpecific binding of a cellular DNA replication protein to the origin of replication of adenovirus DNA.
318 Citations1983Kyosuke Nagata, R A Guggenheimer +1 more
DNase I protection experiments revealed that nuclear factor I binds to a nucleotide sequence located at position 17-48, close to the terminus of Ad DNA, which contains four "consensus" sequences present in various serotypes of AdDNA and is capable of forming higher ordered structures.
CellTranscription cell type specificity is conferred by an immunoglobulin VH gene promoter that includes a functional consensus sequence
315 Citations1985John O. Mason, Gail Williams +1 more
Deletion analysis of this VH promoter indicates that a conserved octamer found 5' of the TATA box in immunoglobulin V genes is a functional part of the tissue-specific promoter upstream element.
CellThe distal transcription signals of the herpesvirus tk gene share a common hexanucleotide control sequence
272 Citations1984Steven L. McKnight, Robert C. Kingsbury +2 more
NatureNuclear factor III, a novel sequence-specific DNA-binding protein from HeLa cells stimulating adenovirus DNA replication
255 Citations1986Ger J.M. Pruijn, Wim van Driel +1 more
The identification of a novel DNA-binding protein from HeLa nuclei, designated NF-III, that recognizes a sequence in the adenovirus origin very close to the NFI-binding site, between nucleotides 36 and 54, which includes the partially conserved nucleotide TATGATAATGAG.
CellHeat shock regulatory elements function as an inducible enhancer in the xenopus hsp70 gene and when linked to a heterologous promoter
241 Citations1986Mariann Bienz, Hugh R.B. Pelham
The Xenopus hsp70 promoter contains three copies of the consensus heat shock element (HSE) between positions -260 and -100 that can be separated from the CCAAT/TATA region without affecting expression of the gene, and it can enhance transcription of a linked beta-globin gene upon heat shock.
Nucleic Acids ResearchThe TGGCA protein binds to the MMTV-LTR, the adenovirus origin of replication, and the BK virus enhancer
203 Citations1985Joachim Nowock, Uwe Borgmeyer +3 more
The TGGCA-binding protein from HeLa cells appears to be identical to nuclear factor I described by others, which stimulates initiation of adenovirus DNA replication in vitro, which suggests that this specific protein-DNA interaction may also be involved in the control of gene activity.
Nucleic Acids ResearchThe TGGCA-binding protein: a eukaryotic nuclear protein recognizing a symmetrical sequence on double-stranded linear DNA
187 Citations1984Uwe Borgmeyer, Joachim Nowock +1 more
Low salt extracts of chicken oviduct nuclei contain a DNA binding protein with high affinity for specific DNA sequences in the flanking regions of the chicken lysozyme gene that can be detected in nuclei from several chicken tissues and from mouse liver.
Molecular and Cellular BiologySequence-specific interactions between cellular DNA-binding proteins and the adenovirus origin of DNA replication.
170 Citations1987Philip J. Rosenfeld, Edward A. O’Neill +2 more
CellStructure and function of the adenovirus origin of replication
163 Citations1984D R Rawlins, Philip J. Rosenfeld +3 more
It is demonstrated that the origin of the adenovirus 2 genome contains two functionally distinct regions, one of which contains a specific binding site for a protein present in uninfected cells and the other contains a sequence that enhances the efficiency of the initiation reaction.
The EMBO JournalRecognition site of nuclear factor I, a sequence‐specific DNA‐binding protein from HeLa cells that stimulates adenovirus DNA replication.
150 Citations1985Peter A. J. Leegwater, Willemien J. van Driel +1 more
Results indicate that the minimal recognition site of nuclear factor I contains 15 or 16 nucleotides, located from nucleotide 25 to nucleotide 39 or 40 of the Ad2 DNA, which contains two of the four conserved nucleotide sequences in this region.
Nucleic Acids ResearchA sensitive and rapid gel retention assay for nuclear factor I and other DNA-binding proteins in crude nuclear extracts
142 Citations1986Rudolf J. Schneider, Irene Gander +3 more
The extreme sensitivity of the assay which surpasses that of conventional footprint assays by at least two orders of magnitude permitted the identification of nuclear factor I-like activities in Saccharomyces cerevisiae.
Molecular and Cellular BiologySite-Specific DNA Binding of Nuclear Factor I: Analyses of Cellular Binding Sites
140 Citations1985Richard M. Gronostajski, Samit Adhya +3 more
Southern blot analyses indicate that the cellular FIB sites described here are present within single-copy DNA in the HeLa cell genome.
Molecular and Cellular BiologyLinker scanning mutagenesis of the 5'-flanking region of the mouse beta-major-globin gene: sequence requirements for transcription in erythroid and nonerythroid cells.
118 Citations1985Patrick Charnay, Pamela L. Mellon +1 more
NatureHigh-affinity binding site for a specific nuclear protein in the human IgM gene
88 Citations1985Lothar Hennighausen, Ulrich Siebenlist +5 more
The binding site for the NF-1 protein in the immunoglobulin μ gene, by analogy with the site in the Ad-5 terminal repeat, may represent one component of a cellular origin of replication; alternatively, it may be responsible for the activation of the chromatin in this region.
Proceedings of the National Academy of SciencesDNA sequences required for the in vitro replication of adenovirus DNA.
88 Citations1984R A Guggenheimer, Bruce Stillman +3 more
The existence of two domains within the first 50 base pairs of the Ad genome, both of which are required for the efficient use of recombinant DNA molecules as templates in an in vitro DNA replication system, was demonstrated.
Molecular and Cellular BiologyPartial purification of a nuclear protein that binds to the CCAAT box of the mouse alpha 1-globin gene.
82 Citations1986Roger B. Cohen, M Sheffery +1 more
Nucleic Acids ResearchAdenovinis DNA replication<i>in vitro</i>: site-directed mutagenesis of the nuclear factor I binding site of the Ad2 origin
80 Citations1985Erik F. J. de Vries, Wim van Driel +3 more
In vitro initiation and DNA chain elongation experiments with the mutants demonstrate that binding of nuclear factor I to the Ad2 origin is necessary for stimulation, however, binding alone is not always sufficient since a mutation which only slightly disturbs binding is strongly impaired in stimulation of DNA replication bynuclear factor I.
Journal of Molecular BiologyOrigin of adenovirus DNA replication
73 Citations1985Ronald T. Hay
DNA sequence analysis of the Ad 2 ori and the corresponding region in Ad4 indicated that, although there are only ten variant base-pairs, eight are located within the Ad2 DNA sequence recognized by the cellular protein nuclear factor I, and these differences therefore identify DNA sequences that are crucial to Ad2 ori function.
Molecular and Cellular BiologySite-specific DNA binding of nuclear factor I: analyses of cellular binding sites.
62 Citations1985Richard M. Gronostajski, Samit Adhya +3 more
Nucleic Acids ResearchAdenovirus sequence required for replication<i>in vivo</i>
54 Citations1985Kai Wang, George D. Pearson
In vivo replication properties of plasmids carrying deletion mutations within cloned adenovirus terminal sequences are studied and a minimal replication origin and an adjacent auxillary region which boosted the efficiency of replication by more than 100-fold are identified.
Molecular and Cellular BiologyPurification of a cellular, double-stranded DNA-binding protein required for initiation of adenovirus DNA replication by using a rapid filter-binding assay.
40 Citations1986John F.X. Diffley, Bruce Stillman
Molecular and Cellular BiologyTemplate requirements for in vivo replication of adenovirus DNA.
19 Citations1986J A Bernstein, Jessie Porter +1 more