Click here to close
Hello! We notice that you are using Internet Explorer, which is not supported by Xenbase and may cause the site to display incorrectly.
We suggest using a current version of Chrome,
FireFox, or Safari.
A new approach to the analysis of DNase I footprinting data and its application to the TFIIIA/5S DNA complex.
Fairall L
,
Rhodes D
.
???displayArticle.abstract???
We have re-examined DNase I footprinting data for the binding of transcription factor IIIA (TFIIIA) to the 5S RNA gene, taking into account the protein-DNA contacts observed in the crystal structure of the DNase I/DNA complex (1, 2). This structure was not available when many of the original footprinting experiments on the TFIIIA/DNA complex were performed. In this way the pattern of DNase I cleavage can be interpreted to map out with greater precision the regions on the 5S DNA occupied by TFIIIA. Then, assuming the binding site for a zinc-finger may be the same as that found in the structure of the zinc-finger protein Zif268/DNA complex (3), and taking into account footprinting data for truncated forms of TFIIIA, the TFIIIA zinc-fingers were fitted within the permitted regions. On the basis of this, an alignment of the zinc-fingers of TFIIIA with its DNA binding site is proposed, which combines features of earlier models (4).
Berg,
Zinc finger domains: hypotheses and current knowledge.
1990, Pubmed
Berg,
Zinc finger domains: hypotheses and current knowledge.
1990,
Pubmed
Bogenhagen,
A control region in the center of the 5S RNA gene directs specific initiation of transcription: II. The 3' border of the region.
1980,
Pubmed
,
Xenbase
Christensen,
Sequence-specific binding of the N-terminal three-finger fragment of Xenopus transcription factor IIIA to the internal control region of a 5S RNA gene.
1991,
Pubmed
,
Xenbase
Churchill,
Mode of interaction of the zinc finger protein TFIIIA with a 5S RNA gene of Xenopus.
1990,
Pubmed
,
Xenbase
Cockell,
Location of the primary sites of micrococcal nuclease cleavage on the nucleosome core.
1983,
Pubmed
Drew,
DNA structural variations in the E. coli tyrT promoter.
1984,
Pubmed
Fairall,
Mapping of the sites of protection on a 5 S RNA gene by the Xenopus transcription factor IIIA. A model for the interaction.
1986,
Pubmed
,
Xenbase
Fairall,
Sequence-specific DNA binding by a two zinc-finger peptide from the Drosophila melanogaster Tramtrack protein.
1992,
Pubmed
Kadonaga,
Isolation of cDNA encoding transcription factor Sp1 and functional analysis of the DNA binding domain.
1987,
Pubmed
Klevit,
Solution structure of a zinc finger domain of yeast ADR1.
1990,
Pubmed
Kochoyan,
Alternating zinc fingers in the human male associated protein ZFY: 2D NMR structure of an even finger and implications for "jumping-linker" DNA recognition.
1991,
Pubmed
Lahm,
DNase I-induced DNA conformation. 2 A structure of a DNase I-octamer complex.
1991,
Pubmed
Lee,
Three-dimensional solution structure of a single zinc finger DNA-binding domain.
1989,
Pubmed
,
Xenbase
Lee,
Contacts between 5 S DNA and Xenopus TFIIIA identified using 5-azido-2'-deoxyuridine-substituted DNA.
1991,
Pubmed
,
Xenbase
Liao,
Specific interaction of the first three zinc fingers of TFIIIA with the internal control region of the Xenopus 5 S RNA gene.
1992,
Pubmed
,
Xenbase
Miller,
Repetitive zinc-binding domains in the protein transcription factor IIIA from Xenopus oocytes.
1985,
Pubmed
,
Xenbase
Nagai,
Zinc-finger motifs expressed in E. coli and folded in vitro direct specific binding to DNA.
1988,
Pubmed
,
Xenbase
Nardelli,
Base sequence discrimination by zinc-finger DNA-binding domains.
1991,
Pubmed
Neuhaus,
Sequence-specific [1H]NMR resonance assignments and secondary structure identification for 1- and 2-zinc finger constructs from SW15. A hydrophobic core involving four invariant residues.
1990,
Pubmed
,
Xenbase
Omichinski,
High-resolution solution structure of the double Cys2His2 zinc finger from the human enhancer binding protein MBP-1.
1992,
Pubmed
Omichinski,
High-resolution three-dimensional structure of a single zinc finger from a human enhancer binding protein in solution.
1990,
Pubmed
Pavletich,
Zinc finger-DNA recognition: crystal structure of a Zif268-DNA complex at 2.1 A.
1991,
Pubmed
Pelham,
A specific transcription factor that can bind either the 5S RNA gene or 5S RNA.
1980,
Pubmed
,
Xenbase
Rhodes,
Structural analysis of a triple complex between the histone octamer, a Xenopus gene for 5S RNA and transcription factor IIIA.
1985,
Pubmed
,
Xenbase
Rhodes,
An underlying repeat in some transcriptional control sequences corresponding to half a double helical turn of DNA.
1986,
Pubmed
,
Xenbase
Sakaguchi,
Specific DNA binding to a major histocompatibility complex enhancer sequence by a synthetic 57-residue double zinc finger peptide from a human enhancer binding protein.
1991,
Pubmed
Sakonju,
Contact points between a positive transcription factor and the Xenopus 5S RNA gene.
1982,
Pubmed
,
Xenbase
Sakonju,
A control region in the center of the 5S RNA gene directs specific initiation of transcription: I. The 5' border of the region.
1980,
Pubmed
,
Xenbase
Smith,
Domains of the positive transcription factor specific for the Xenopus 5S RNA gene.
1984,
Pubmed
,
Xenbase
Suck,
Structure refined to 2A of a nicked DNA octanucleotide complex with DNase I.
1988,
Pubmed
Thukral,
Two monomers of yeast transcription factor ADR1 bind a palindromic sequence symmetrically to activate ADH2 expression.
1991,
Pubmed
Vrana,
Mapping functional regions of transcription factor TFIIIA.
1988,
Pubmed
,
Xenbase
