Zinc-finger peptide

Fairall, L., et al. The crystal structure of a two zinc finger peptide reveals an extension to the rules for zinc finger/DNA recognition. Nature 366 483-487, 1993. 

As we have already seen zinc-finger peptides are well-studied polypeptide motifs that have found many applications in synthetic systems, mostly because of their abihty to bind metal ions and interact with oligonucleotides. In this context the report by lima and Crooke [44] of the hydrolytic cleavage by a zinc-finger peptide devoid of any metal ion is a surprising. The system they studied, a 30-amino acid sequence, is based on a catalytic mechanism very similar to that discussed above... 

The binding of thioether ligands has been further studied by Berg and co-workers in an attempt to gain understanding of the role of the zinc in the reactivity regulation of the cysteine residues to alkylation. Variants of a consensus zinc finger peptide were modified to mimic the effects of... 

Rate constants for aquation of the trigonal bipyramidal [M(Me3tren)(H20)]2+ complexes of Co2+ and Cu2+ are remarkably similar, at 34 and 106 s-1, respectively (281). Co2( reacts with a typical zinc finger peptide with k =l.h x 104M-1s-1 the product reacts with Zn2+ rather slowly (k = 5.3 x 10-2 s 1) by a dissociative mechanism (282). 

Relative reactivies of the species Zn2+, Zn(OH)+, Zn(OH) s, and Zn(OH)4 have been established for the reaction of zinc(II) with tetrad-methyl-4-pyridyl)porphyrins in basic solution (319). The rate constant for reaction of a typical zinc finger peptide with Zn2q has been estimated as 2.8 x 107 M-1 s 1, for dissociation of this complex 1.6 x 104 s 1 (282). 

Fig. 41. Berg s proposed structure of a zinc finger peptide (left) hydrogen bond pattern (center) ribbon diagram illustrating secondary-structure components (right) molecular model illustrating conserved metal-binding and hydrophobic residues. [Reprinted with permission from Berg, J. M. (1988) Proc. Natl. Acad. Set. U.S.A. 85, 99-102.]...

Burke CJ, Sanyal G, Bruner MW, Ryan JA, LaFemina RL, Robbins HL, Zeft AS, Middaugh CR, Cordingley MG. Structural implications of spectroscopic characterization of a putative zinc finger peptide from HIV-1 integrase. JBiol Chem 1992 267 9639-9644. 

Klug A. Zinc finger peptides for the regulation of gene expression. J. Mol. Biol. 1999 293 215-218. 

Table I. Relative Reaction Rates for Attack of Thiuram Disulfides by HIV-1 Full Length NCp7 Protein or Second Zinc Finger Peptide (ZnF2p7)...

Zinc finger peptide cobalt AHis4c meimd /3-mercaptoethanol (SH) 8 x 10 4 2 x 10 4 114... 

Roesijadi, G., R. Bogumil, M. Vasakand J.H. Kagi. Modulation of DNA binding of a tramtrack zinc finger peptide by the metallothionein-thionein conjugate pair. J. Biol. Chem. 273 17425-17432, 1998. 

A) A schematic of a zinc-finger peptide domain. (B) The proposed schematic structure of a zinc-finger domain based on comparisons to other structurally characterized metalloproteins. ... 

Blackshear P J, Lai W S, Kennington E A, et al. (2003). Characteristics of the interaction of a synthetic human tristetraprolin tandem zinc finger peptide with AU-rich element-containing RNA substrates. J. Biol. Chem. 278 19947-19955. 

Palmer, A.G., Case, D.A. Molecular dynamics analysis of NMR relaxation in a zinc-finger peptide. J. Am. Chem. Soc. 1992,114,9059-67. 

CP-CCCC Consensus zinc finger peptide with four cysteine residues in the metal-binding site... 

CP-CCHC Consensus zinc finger peptide with three cysteine residues... 

Imanishi, M., and Sugiura, Y. Artificial DNA-bending six-zinc finger peptides with different charged linkers Distinct kinetic properties of DNA bindings. Biochemistry 41,1328-1334 (2002). 

The use of fluorescence for chemical sensing requires h hly spedfic probes. One approach to obtaining the needed specificity is to rely on proteins which are known to bind the desired analyte. This approach has been used to develop sensing proteins for calcium, maltose, and zinc. One senses for zinc was based on a zinc finger peptide. Zinc fingers are part of transcription factors. These proteins bind zinc with high affinity and specificity, the metal typically being bound to histidine and/or cysteine residues. 

Lee MS, Palmer AG, Wright PE Relationship between HI and C13 NMR chemical shifts and the secondary and tertiary structure of a zinc finger peptide. J Biomolec NMR 1992, 2(4) 307-322. 

Table 1. Average apparent stability constants for zinc in TFIIIA, the synthetic zinc finger peptides CP-1 and NCplO, and Zny-thionein, at pH 7.0...

Eis, P.S., Lakowicz, J.R. Time-resolved energy transfer measurements of donor-acceptor distance distributions and intramolecular flexibility of a CCHH zinc finger peptide. Biochemistry 32, 7981-7993 (1995)... 

In another recent study of dielectric properties of a protein-water system, Loeffler et al. ° presented a rigorous derivation of a theory for the calculation of the frequency-dependent dielectric properties of each component of a system which, in their example, consisted of the HIV-1 zinc finger peptide, water, and one zinc and two chloride ions. A 13.1 ns molecular dynamics simulation was performed, and, from it, dielectric constants for the various components of the system were extracted. It was discovered that the first hydration layer had a much lower dielectric response (47) than that of ordinary bulk water (80). The... 

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