interaction of bacteriophage fd gene 5 protein with specific nucleic acid sequences

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University of Portsmouth, School of Biological Sciences , Portsmouth
StatementAntony William Oliver.
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The interaction of bacteriophage fd Gene 5 protein with specific nucleic acid sequences. Thesis (Thesis) Find all citations by this author (default).Author: Oliver Aw.

The interaction of bacteriophage fd Gene 5 protein with specific nucleic acid sequences. Author: Oliver, Antony William. ISNI: Awarding Body: University of Portsmouth Current Institution: University of Portsmouth Date of Award.

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Abstract. The bacteriophage fd gene 5 protein (G5P) binds strongly to single stranded DNA. Electrostatic interactions, involving ion pairing of positively charged lysine and arginine protein side chains with the negatively charged phosphates of four nucleotidyl units of DNA, are very important in this interaction process 1–r, implication of specific lysyl residues in the DNA-binding Author: C.

Geraldes, A. Sherry, L. Dick, C. Gray, D. Gray. The gene 5 protein of filamentous bacteriophage fd is a single-stranded DNA-binding protein that binds non-specifically to all single-stranded nucleic acid sequences, but in addition is capable of specific binding to the sequence d (GT5 G 4 CT 4 C) and the RNA equivalent r (GU 5 G 4 CU 4C), the latter interaction being important for translational by:   J.

Mol. Bid. () 68, Properties of the Isolated Gene 5 Protein of Bacteriophage fd JAN L. OEY AND ROLF KNIPPERS Friedrich- Miescher- Laboratorium der Max-Planck-Gesellschaft Tingen, W.

Germany (Received 29 Octoberand in revised form 16 March ) Gene 5 protein ofbacteriophage fd was purified from phage infected by: Mechanism of DNA binding to the gene 5 protein of bacteriophage fd. Biochemistry23 (2), Tyrosine mutant helps define overlapping CD bands from fd gene 5 protein nucleic acid complexes.

Biopolymers42 (3), Studies on metal ions-DNA interactions: Specific behaviour of reiterative DNA sequences. The genomic library was derived from the bacteriophage fd, and the gene 5 protein (g5p) from the phage was used as a target protein.

Description interaction of bacteriophage fd gene 5 protein with specific nucleic acid sequences FB2

After four rounds of primer-free genomic SELEX, most cloned sequences overlapped at a segment within gene 6 of the viral genome. This sequence segment was pyrimidine-rich and contained no stable secondary structures. Paradiso PR, Konigsberg W. Photochemical cross-linking of the gene 5 DNA complex from fd-infected cells.

J Biol Chem. Feb 10; (3)– Paradiso PR, Nakashima Y, Konigsberg W. Photochemical cross-linking of protein. nucleic acid complexes. The attachment of the fd gene 5 protein to fd DNA.

Protein primed initiation and DNA polymerization By site-directed mutagenesis in the five most conserved regions of amino acid similarity found in the C-terminal portion of DNA polymerase and other eukaryotic-type DNA polymerases (see Fig.

2), it has been demonstrated that the C-terminal twothirds of the 29 DNA polymerase polypeptide. Almost every stage in the regulation of gene expression involves the interaction of proteins with specific nucleic acids sequences.

The identification of the nucleic acid recognition sequence of a given DNA-binding protein is therefore often the first step to. Hélène C () Metal ion-mediated specific interactions between nucleic acid bases of polynucleotides and amino acid side chains of polypeptides.

Nucl Ac Res 2: – CrossRef Google Scholar Hélène C () Specific recognition of nucleic acids by proteins. These results are reminescent of the binding of the ssDNA‐binding gene 5 protein of filamentous bacteriophage fd to parallel G‐quadruplex structures.

The unique feature of parallel G‐quadruplexes is the association of four separate strands held together by the hydrophobic stacking of large, planar hydrogen‐bonded DNA base quartets.

Titrations of poly[d(A)] or fd ssDNA with wild type, Y26F, Y34F, or Y41F gene 5 proteins resulted in perturbations of the nucleic acid near-UV CD bands, specific for the particular nucleic acid. Nucleic Acids Res. Nov; 2 (11)– [PMC free article] Takanami M, Sugimoto K, Sugisaki H, Okamoto T. Sequence of promoter for coat protein gene of bacteriophage fd.

Nature. Mar 25; ()– Allet B, Solem R. Separation and analysis of promoter sites in bacteriophage lambda DNA by specific endonucleases. Filamentous bacteriophage is a family of viruses (Inoviridae) that infect bacteria, named for their filamentous shape, a worm-like chain (long, thin and flexible, reminiscent of a length of cooked spaghetti), about 6 nm in diameter and about nm long.

The coat of the virion comprises five types of viral protein, located in the inner membrane of the host bacteria, which are added to. Biochemistry All Publications/Website.

OR SEARCH CITATIONS. Protein SciOlah GA, Gray DM, Gray CM, Kergil DL, Sosnick TR, Mark BL, Vaughan MR, Trewhella J: Structures of fd gene 5 protein-nucleic acid complexes: a combined solution scattering and electron microscopy study. J Mal BiolThe gene V protein product could thus be deduced to be identical to that of the corresponding proteins from bacteriophages fd and M A potential EcoRII cleavage site was formed by nucleotides to of gene V.

Replicative form DNA form DNA from bacteriophage f1 is normally resistant to this enzyme, and evidence is presented to suggest. A Yudelevich's 26 research works with citations and reads, including: AC The most abundant protein of Alexandrium catenella and its potential use in encystment/excystment studies.

The binding of gene 5 protein from bacteriophage fd to poly[d(A-T)], fdDNA, and poly(A) is accompanied by a dramatic reversal in the signs of the large ellipticity bands of the nucleic acid. Like all viruses, phages are simple organisms that consist of a core of genetic material (nucleic acid) surrounded by a protein capsid.

The nucleic acid may be either DNA or RNA and may be double-stranded or single-stranded. There are three basic structural forms of phage: an icosahedral (sided) head with a tail, an icosahedral head without. Nucleic Acid Enzymes; RNA and RNA-protein complexes B.

Zink, G. Osterburg, H. Schaller, K. Sugimoto, H. Sugisaki, T. Okamoto, M. Takanami, Nucleotide sequence of bacteriophage fd DNA, Nucleic Acids Research, Volume 5 Nucleotide sequence from bacteriophage ø80 with high homology to the major coat protein gene of lambda.

Related articles in. Sequence-specific 1H-NMR assignment and secondary structure of the Tyr41 His mutant of the single-stranded DNA binding protein, gene V protein, encoded by the filamentous bacteriophage M European Journal of Biochemistry(2), Cas9 (CRISPR associated protein 9, formerly called Cas5, Csn1, or Csx12) is a kilodalton protein which plays a vital role in the immunological defense of certain bacteria against DNA viruses and plasmids, and is heavily utilized in genetic engineering main function is to cut DNA and thereby alter a cell's genome.

The CRISPR-Cas9 genome editing technique was a significant. In biology, a gene is a sequence of nucleotides in DNA or RNA that encodes the synthesis of a gene product, either RNA or protein.

During gene expression, the DNA is first copied into RNA can be directly functional or be the intermediate template for a protein that performs a function. The transmission of genes to an organism's offspring is the basis of the inheritance of phenotypic.

Diverse RNA-programmable CRISPR-Cas enzymes. CRISPR-Cas systems provide microbes with RNA-guided adaptive immunity to foreign genetic elements by directing nucleases to bind and cut specific nucleic acid sequences (3–5) ().Through a process termed adaptation, microbes capture snippets of foreign genetic elements and incorporate them into their genomic CRISPR array.

Associations of proteins with nucleic acids are required at every step of DNA replication, repair, and transcription and of messenger RNA translation on ribosomes. The recognition of nucleic acid structures and base sequences by proteins requires a structural complementarity between the interacting regions of the two macromolecules.

The gene 5 protein, coded for by the bacteriophage fd, forms a complex with single stranded fd-DNA such that one gene 5 protein monomer interacts with four bases.

Exposure of this complex to ultraviolet light results in the formation of covalent bonds between % of the gene 5 protein monomers which are bound to the DNA. Attachment of a bacteriophage to its host requires A. specific surface proteins on the bacteriophage.

specific receptor molecules on the host cell. nucleic acid protein interactions. specific surface proteins on the bacteriophage and specific receptor molecules on the host cell. A technique is described for the identification of nucleic acid sequences bound with high affinity by proteins or by other molecules suitable for a partitioning assay.

Here, a histidine-tagged protein is allowed to interact with a pool of nucleic acids and the protein–nucleic acid complexes formed are retained on a Ni-NTA matrix.

The sequence of genes in each T4 virus within a population is the same but starts with a different gene at the 5' end. If each of these linear pieces is circularized, the gene sequences would be identical.

Details interaction of bacteriophage fd gene 5 protein with specific nucleic acid sequences PDF

The T4 DNA, therefore, is described as being A. two fold rotationally symmetrical. B. a .Nakashima Y, Konigsberg W. Reinvestigation of a region of the fd bacteriophage coat protein sequence. J Mol Biol. Sep 25; 88 (3)– Ohmori H, Tomizawa JI, Maxam AM. Detection of 5-methylcytosine in DNA sequences.

Nucleic Acids Res. May; 5 (5)– [PMC free article] Petersen GB, Reeves JM.Reductive Methylation of the Lysyl Residues in the fd Gene 5 DNA-Binding Protein: CD and 13 C NMR Results on the Modified Protein.

Journal of Biomolecular Structure and Dynamics2 (1),