Literature DB >> 19290357

Harnessing natures ability to control metal ion coordination geometry using de novo designed peptides.

Anna F A Peacock1, Olga Iranzo, Vincent L Pecoraro.   

Abstract

Advances in protein chemistry and molecular and structural biology have empowered modern chemists to build complex biological architectures using a "first principles" approach, which is known as de novo protein design. In this Perspective we demonstrate how simple three-stranded alpha-helical constructs can be prepared by the sole consideration of the primary amino acid sequence of a peptide. With these well defined systems, we then demonstrate that metal binding cavities can be carved out of the hydrophobic cores of these aggregates in order to bind metal ions such as cadmium with well defined coordination geometries. Examples will be given of homoleptic CdS(3) complexes, CdS(3)O sites and proteins which contain equilibrium mixtures of these two species. We will provide a description of a strategy that allows us to build heterochromic peptides (small proteins that complex two metals in nearly identical environments but which result in different physical properties and allow for metal site selectivity). We conclude with a new class of designed peptides, diastereopeptides, which can exploit changes in amino acid chirality to control metal ion coordination number and lead to an alternative path towards heterochromic systems. The constructs described herein represent the initial steps of preparing protein structures that may simultaneous contain structural and catalytic metal binding centers. These studies inform the community on a developing field, which promises new opportunities for the study of bioinorganic chemistry.

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Year:  2009        PMID: 19290357      PMCID: PMC3046812          DOI: 10.1039/b818306f

Source DB:  PubMed          Journal:  Dalton Trans        ISSN: 1477-9226            Impact factor:   4.390


  55 in total

1.  Arsenic(III)-cysteine interactions stabilize three-helix bundles in aqueous solution.

Authors:  B T Farrer; C P McClure; J E Penner-Hahn; V L Pecoraro
Journal:  Inorg Chem       Date:  2000-11-27       Impact factor: 5.165

2.  Effects of side-chain characteristics on stability and oligomerization state of a de novo-designed model coiled-coil: 20 amino acid substitutions in position "d".

Authors:  B Tripet; K Wagschal; P Lavigne; C T Mant; R S Hodges
Journal:  J Mol Biol       Date:  2000-07-07       Impact factor: 5.469

3.  Site-selective metal binding by designed alpha-helical peptides.

Authors:  Manolis Matzapetakis; Vincent L Pecoraro
Journal:  J Am Chem Soc       Date:  2005-12-28       Impact factor: 15.419

4.  The role of protonation and metal chelation preferences in defining the properties of mercury-binding coiled coils.

Authors:  G R Dieckmann; D K McRorie; J D Lear; K A Sharp; W F DeGrado; V L Pecoraro
Journal:  J Mol Biol       Date:  1998-07-31       Impact factor: 5.469

5.  Peptidic models for the binding of Pb(II), Bi(III) and Cd(II) to mononuclear thiolate binding sites.

Authors:  Manolis Matzapetakis; Debdip Ghosh; Tsu-Chien Weng; James E Penner-Hahn; Vincent L Pecoraro
Journal:  J Biol Inorg Chem       Date:  2006-07-20       Impact factor: 3.358

6.  Understanding metalloprotein folding using a de novo design strategy.

Authors:  Debdip Ghosh; Vincent L Pecoraro
Journal:  Inorg Chem       Date:  2004-12-13       Impact factor: 5.165

7.  Effect of chain length on the formation and stability of synthetic alpha-helical coiled coils.

Authors:  J Y Su; R S Hodges; C M Kay
Journal:  Biochemistry       Date:  1994-12-27       Impact factor: 3.162

8.  Letter: Cadmium-113 Fourier transform nuclear magnetic resonance of cadmium(II) carbonic anhydrases and cadmium(II) alkaline phosphatase.

Authors:  I M Armitage; R T Pajer; A J Uiterkamp; J F Chleowski; J E Coleman
Journal:  J Am Chem Soc       Date:  1976-09-01       Impact factor: 15.419

9.  Binding of Cu(II) or Zn(II) in a de novo designed triple-stranded alpha-helical coiled-coil toward a prototype for a metalloenzyme.

Authors:  T Kiyokawa; K Kanaori; K Tajima; M Koike; T Mizuno; J-I Oku; T Tanaka
Journal:  J Pept Res       Date:  2004-04

10.  The correlation of 113Cd NMR and 111mCd PAC spectroscopies provides a powerful approach for the characterization of the structure of Cd(II)-substituted Zn(II) proteins.

Authors:  Olga Iranzo; Tamas Jakusch; Kyung-Hoon Lee; Lars Hemmingsen; Vincent L Pecoraro
Journal:  Chemistry       Date:  2009       Impact factor: 5.236

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  22 in total

1.  Designing functional metalloproteins: from structural to catalytic metal sites.

Authors:  Melissa L Zastrow; Vincent L Pecoraro
Journal:  Coord Chem Rev       Date:  2013-09       Impact factor: 22.315

2.  Modifying the Steric Properties in the Second Coordination Sphere of Designed Peptides Leads to Enhancement of Nitrite Reductase Activity.

Authors:  Karl J Koebke; Fangting Yu; Elvin Salerno; Casey Van Stappen; Alison G Tebo; James E Penner-Hahn; Vincent L Pecoraro
Journal:  Angew Chem Int Ed Engl       Date:  2018-01-26       Impact factor: 15.336

3.  Lead(II) Binding in Natural and Artificial Proteins.

Authors:  Virginia Cangelosi; Leela Ruckthong; Vincent L Pecoraro
Journal:  Met Ions Life Sci       Date:  2017-04-10

Review 4.  Protein design: toward functional metalloenzymes.

Authors:  Fangting Yu; Virginia M Cangelosi; Melissa L Zastrow; Matteo Tegoni; Jefferson S Plegaria; Alison G Tebo; Catherine S Mocny; Leela Ruckthong; Hira Qayyum; Vincent L Pecoraro
Journal:  Chem Rev       Date:  2014-03-24       Impact factor: 60.622

5.  Methods for Solving Highly Symmetric De Novo Designed Metalloproteins: Crystallographic Examination of a Novel Three-Stranded Coiled-Coil Structure Containing d-Amino Acids.

Authors:  L Ruckthong; J A Stuckey; V L Pecoraro
Journal:  Methods Enzymol       Date:  2016-06-23       Impact factor: 1.600

6.  Design of a three-helix bundle capable of binding heavy metals in a triscysteine environment.

Authors:  Saumen Chakraborty; Joslyn Yudenfreund Kravitz; Peter W Thulstrup; Lars Hemmingsen; William F DeGrado; Vincent L Pecoraro
Journal:  Angew Chem Int Ed Engl       Date:  2011-02-15       Impact factor: 15.336

7.  A Crystallographic Examination of Predisposition versus Preorganization in de Novo Designed Metalloproteins.

Authors:  Leela Ruckthong; Melissa L Zastrow; Jeanne A Stuckey; Vincent L Pecoraro
Journal:  J Am Chem Soc       Date:  2016-09-02       Impact factor: 15.419

8.  Controlling and fine tuning the physical properties of two identical metal coordination sites in de novo designed three stranded coiled coil peptides.

Authors:  Olga Iranzo; Saumen Chakraborty; Lars Hemmingsen; Vincent L Pecoraro
Journal:  J Am Chem Soc       Date:  2010-12-16       Impact factor: 15.419

9.  De Novo Design of Metalloproteins and Metalloenzymes in a Three-Helix Bundle.

Authors:  Jefferson S Plegaria; Vincent L Pecoraro
Journal:  Methods Mol Biol       Date:  2016

10.  Controlling self-assembly of a peptide-based material via metal-ion induced registry shift.

Authors:  Paolo Anzini; Chunfu Xu; Spencer Hughes; Elizabeth Magnotti; Tao Jiang; Lars Hemmingsen; Borries Demeler; Vincent P Conticello
Journal:  J Am Chem Soc       Date:  2013-07-09       Impact factor: 15.419

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