Metal-recognition by repeating polypeptides

Brown, Stanley

doi:10.1038/nbt0397-269

Cited by 459 publications

(438 citation statements)

References 27 publications

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“…In another example, RNA decoys such as 27 have been constructed for the binding of HIV-1 transactivating proteins. 62 …”

Section: Circular Structures As Decoysmentioning

confidence: 99%

“…It has also been used to generate repeating DNAs which encode the synthesis of repeating peptide sequences. 62 RNA polymerase enzymes are similar to DNA polymerases in that they also make a sequence by traveling along a template strand of DNA and copying it. However, RNA polymerases do not require primers but instead are directed to start at a particular site by conserved sequences called promoters.…”

Section: Polymerase Enzymesmentioning

confidence: 99%

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Recognition of DNA, RNA, and Proteins by Circular Oligonucleotides

Kool

1998

Acc. Chem. Res.

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IntroductionWhile the backbone organization of DNA and RNA is normally quite regular, there are many structural forms which these molecules can adapt by undergoing various secondary and tertiary helical and folded interactions, by being subjected to twisting and bending, and by interconversion between various topological and knotted variations. Probably the most common structural form of DNA in nature is a long double helix in which the ends are joined into a circle. The genomes of most lower organisms are organized in this way, 1 and clearly this circular structure lends some important advantage to these organisms or evolution would not have selected for it.Most chemists are chiefly interested in structure and reactivity of molecules smaller than entire bacterial genomes; such large circular DNAs will not be discussed herein for that reason. Of particular interest, then, is the question: what are the smallest cyclic DNAs or RNAs which exist in nature? For DNA, the answer appears to be several hundred to perhaps 1500 nucleotides (nt), which is still rather large. For RNA, probably the smallest known circular structures are the viroid RNAs, which are single-stranded and as small as 246 nucleotides in size. 2 However, this is far from the smallest possible cyclic nucleic acid structure. Duplex DNA can exist in circles at least as small as 125 bp (base pairs); 3 cyclic structures smaller than this are difficult to achieve because of the rigidity of the double helix. 4 Single-stranded DNA and RNAs do not have this problem, and rings as small as two nucleotides are known. 5 Thus, the realm of possible cyclic DNA and RNA structures falls easily into the size range most palatable to chemists.Interestingly, although small synthetic circular DNAs had been reported a number of times as early as in 1968, 6 prior to 1990 there were no reported studies investigating the effect of this quite significant structural modification on DNA's molecular recognition properties. Despite this, there was quite reasonable precedent that such a structural alteration might have a large effect on such recognition properties. Indeed, in recent decades it has become widely recognized that macrocyclic molecular structures can have strong advantages in the formation of noncovalent complexes. 7 Among these advantages (relative to noncyclic molecules of similar structure) are tighter binding affinity and greater specificity for binding the target of interest. The advent of simple synthetic approaches to the construction of oligonucleotides has led to an explosion of studies aimed at studying and modifying their noncovalent binding properties. In our early work we proposed that the principle of macrocyclic recognition could also be applied to nucleic acids in small synthetic well-defined systems. The testing of that hypothesis is the subject of this Account. Recognition of Nucleic AcidsIn 1990 when we began our studies it was not trivial to synthesize a circular oligonucleotide from a linear precursor; however, the development of new synthetic meth...

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“…In another example, RNA decoys such as 27 have been constructed for the binding of HIV-1 transactivating proteins. 62 …”

Section: Circular Structures As Decoysmentioning

confidence: 99%

Section: Polymerase Enzymesmentioning

confidence: 99%

Recognition of DNA, RNA, and Proteins by Circular Oligonucleotides

Kool

1998

Acc. Chem. Res.

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“…The central premise of this interdisciplinary field is that genetically engineered peptides for inorganics (GEPIs) 1 can be utilized as molecular erector sets. [2][3][4][5][6] With molecular biomimetics methods, peptides may direct synthesis, fabrication, assembly, and architecture of hybrid materials, creating materials with programmed composition, phase, and topology. Such materials could have designed and controlled functions at the molecular or nanometer scale.…”

Section: Introductionmentioning

confidence: 99%

“…Peptides have desirable inorganic-binding and assembly characteristics and can be used as molecular building blocks in practical applications. [2][3][4][5][6] The peptides work either in isolation or when inserted within the structural framework of designer proteins (such as enzymes) that have useful characteristics. The central premise of this interdisciplinary field is that genetically engineered peptides for inorganics (GEPIs) 1 can be utilized as molecular erector sets.…”

Section: Introductionmentioning

confidence: 99%

“…The peptide fabrication and assembly processes take place under ambient and environmentally friendly conditions. [1][2][3][4][5][6][7][8][9][10][11] Gaining the ability to closely manipulate the behavior of peptides to fully control materials formation would be a giant leap toward realizing nanometer-scale building blocks that tailor electronic, optical, mechanical, or magnetic materials properties. 25 Molecular biology and genetics approaches could modify the polypeptides and their molecular-recognition characteristics, [11][12][13][14][15] and traditional and state-of-the-art engineering approaches 16 could create inorganic or synthetic structures such as nanoparticles, [17][18][19][20] quantum dots, 20 molecular wires 21 or nanowires, 22 or synthetic molecular systems 23 (e.g., organic semiconductors).…”

Section: Introductionmentioning

confidence: 99%

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Molecular Biomimetics: Genetic Synthesis, Assembly, and Formation of Materials Using Peptides

Tamerler¹,

Sarıkaya²

2008

MRS Bull.

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In nature, the molecular-recognition ability of peptides and, consequently, their functions are evolved through successive cycles of mutation and selection. Using biology as a guide, it is now possible to select, tailor, and control peptide-solid interactions and exploit them in novel ways. Combinatorial mutagenesis provides a protocol to genetically select short peptides with specific affinity to the surfaces of a variety of materials including metals, ceramics, and semiconductors. In the articles of this issue, we describe molecular characterization of inorganic-binding peptides; explain their further tailoring using post-selection genetic engineering and bioinformatics; and finally demonstrate their utility as molecular synthesizers, erectors, and assemblers. The peptides become fundamental building blocks of functional materials, each uniquely designed for an application in areas ranging from practical engineering to medicine.

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Biomineralization: Peptide‐Mediated Synthesis of Materials

Rutledge

Wright

2005

Encyclopedia of Inorganic Chemistry

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Biomineralization provides many examples of the ambient synthesis of materials. Often associated with these systems are peptide templates. Synthetically, these templates offer tunable entities that can be altered in ways that affect the resulting composition, size, and morphology of the desired material. The development of peptide‐display methods has aided in the expansion of this approach to include many types of abiological substances. Accordingly, this review focuses on the identification and use of peptides involved in the syntheses of a number of different types of materials (metal oxides, calcium carbonate, metallic nanostructures). Covering only the most recent of advances (2004–2007), we examine the control exhibited by peptides free in solution and the ability of researchers to address and alter that control. The effects demonstrated as a result of immobilizing the peptide on a nanostructured or biological surface are discussed. Finally, the future of biomimetic synthesis of nanomaterials is considered in an attempt to gauge where biomineralization is headed and what possibilities it might offer down the road.

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Metal-recognition by repeating polypeptides

Cited by 459 publications

References 27 publications

Recognition of DNA, RNA, and Proteins by Circular Oligonucleotides

Recognition of DNA, RNA, and Proteins by Circular Oligonucleotides

Molecular Biomimetics: Genetic Synthesis, Assembly, and Formation of Materials Using Peptides

Biomineralization: Peptide‐Mediated Synthesis of Materials

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