Literature DB >> 22985400

Spectroscopic and DFT studies of second-sphere variants of the type 1 copper site in azurin: covalent and nonlocal electrostatic contributions to reduction potentials.

Ryan G Hadt1, Ning Sun, Nicholas M Marshall, Keith O Hodgson, Britt Hedman, Yi Lu, Edward I Solomon.   

Abstract

Tclass="Chemical">he reduction potentials (E(0)) of type 1 (T1) or <class="Chemical">span class="Species">blue copper (BC) sites in proteins and enzymes with identical first coordination spheres around the redox active copper ion can vary by ~400 mV. Here, we use a combination of low-temperature electronic absorption and magnetic circular dichroism, electron paramagnetic resonance, resonance Raman, and S K-edge X-ray absorption spectroscopies to investigate a series of second-sphere variants--F114P, N47S, and F114N in Pseudomonas aeruginosa azurin--which modulate hydrogen bonding to and protein-derived dipoles nearby the Cu-S(Cys) bond. Density functional theory calculations correlated to the experimental data allow for the fractionation of the contributions to tuning E(0) into covalent and nonlocal electrostatic components. These are found to be significant, comparable in magnitude, and additive for active H-bonds, while passive H-bonds are mostly nonlocal electrostatic in nature. For dipoles, these terms can be additive to or oppose one another. This study provides a methodology for uncoupling covalency from nonlocal electrostatics, which, when coupled to X-ray crystallographic data, distinguishes specific local interactions from more long-range protein/active interactions, while affording further insight into the second-sphere mechanisms available to the protein to tune the E(0) of electron-transfer sites in biology.

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Year:  2012        PMID: 22985400      PMCID: PMC3506006          DOI: 10.1021/ja306438n

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  61 in total

1.  Solvation effects on S K-edge XAS spectra of Fe-S proteins: normal and inverse effects on WT and mutant rubredoxin.

Authors:  Ning Sun; Abhishek Dey; Zhiguang Xiao; Anthony G Wedd; Keith O Hodgson; Britt Hedman; Edward I Solomon
Journal:  J Am Chem Soc       Date:  2010-09-15       Impact factor: 15.419

2.  Resonance raman spectra of "blue" copper proteins and the nature of their copper sites.

Authors:  O Siiman; N M Young; P R Carey
Journal:  J Am Chem Soc       Date:  1976-02-04       Impact factor: 15.419

Review 3.  The blue oxidases, ascorbate oxidase, laccase and ceruloplasmin. Modelling and structural relationships.

Authors:  A Messerschmidt; R Huber
Journal:  Eur J Biochem       Date:  1990-01-26

4.  Resonance Raman studies of "blue" copper proteins.

Authors:  O Siiman; N M Young; P R Carey
Journal:  J Am Chem Soc       Date:  1974-08-21       Impact factor: 15.419

Review 5.  Energised (entatic) states of groups and of secondary structures in proteins and metalloproteins.

Authors:  R J Williams
Journal:  Eur J Biochem       Date:  1995-12-01

6.  N-terminal arm exchange is observed in the 2.15 A crystal structure of oxidized nitrite reductase from Pseudomonas aeruginosa.

Authors:  D Nurizzo; M C Silvestrini; M Mathieu; F Cutruzzolà; D Bourgeois; V Fülöp; J Hajdu; M Brunori; M Tegoni; C Cambillau
Journal:  Structure       Date:  1997-09-15       Impact factor: 5.006

Review 7.  An outer-sphere hydrogen-bond network constrains copper coordination in blue proteins.

Authors:  Michael C Machczynski; Harry B Gray; John H Richards
Journal:  J Inorg Biochem       Date:  2002-02       Impact factor: 4.155

8.  The role of hydrogen bonding at the active site of a cupredoxin: the Phe114Pro azurin variant.

Authors:  Sachiko Yanagisawa; Mark J Banfield; Christopher Dennison
Journal:  Biochemistry       Date:  2006-07-25       Impact factor: 3.162

Review 9.  Copper protein structures.

Authors:  E T Adman
Journal:  Adv Protein Chem       Date:  1991

Review 10.  Rack-induced bonding in blue-copper proteins.

Authors:  B G Malmström
Journal:  Eur J Biochem       Date:  1994-08-01
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  29 in total

1.  Design of a single protein that spans the entire 2-V range of physiological redox potentials.

Authors:  Parisa Hosseinzadeh; Nicholas M Marshall; Kelly N Chacón; Yang Yu; Mark J Nilges; Siu Yee New; Stoyan A Tashkov; Ninian J Blackburn; Yi Lu
Journal:  Proc Natl Acad Sci U S A       Date:  2015-12-02       Impact factor: 11.205

2.  Copper Oxidation/Reduction in Water and Protein: Studies with DFTB3/MM and VALBOND Molecular Dynamics Simulations.

Authors:  Haiyun Jin; Puja Goyal; Akshaya Kumar Das; Michael Gaus; Markus Meuwly; Qiang Cui
Journal:  J Phys Chem B       Date:  2015-12-17       Impact factor: 2.991

3.  Sulfur K-Edge XAS Studies of the Effect of DNA Binding on the [Fe4S4] Site in EndoIII and MutY.

Authors:  Yang Ha; Anna R Arnold; Nicole N Nuñez; Phillip L Bartels; Andy Zhou; Sheila S David; Jacqueline K Barton; Britt Hedman; Keith O Hodgson; Edward I Solomon
Journal:  J Am Chem Soc       Date:  2017-08-10       Impact factor: 15.419

4.  Activating Metal Sites for Biological Electron Transfer.

Authors:  Edward I Solomon; Ryan G Hadt; Benjamin E R Snyder
Journal:  Isr J Chem       Date:  2016-08-01       Impact factor: 3.333

Review 5.  Copper active sites in biology.

Authors:  Edward I Solomon; David E Heppner; Esther M Johnston; Jake W Ginsbach; Jordi Cirera; Munzarin Qayyum; Matthew T Kieber-Emmons; Christian H Kjaergaard; Ryan G Hadt; Li Tian
Journal:  Chem Rev       Date:  2014-03-03       Impact factor: 60.622

6.  Molecular dynamics simulations of apocupredoxins: insights into the formation and stabilization of copper sites under entatic control.

Authors:  Luciano A Abriata; Alejandro J Vila; Matteo Dal Peraro
Journal:  J Biol Inorg Chem       Date:  2014-01-30       Impact factor: 3.358

Review 7.  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

Review 8.  Metalloproteins containing cytochrome, iron-sulfur, or copper redox centers.

Authors:  Jing Liu; Saumen Chakraborty; Parisa Hosseinzadeh; Yang Yu; Shiliang Tian; Igor Petrik; Ambika Bhagi; Yi Lu
Journal:  Chem Rev       Date:  2014-04-23       Impact factor: 60.622

9.  Design of Heteronuclear Metalloenzymes.

Authors:  A Bhagi-Damodaran; P Hosseinzadeh; E Mirts; J Reed; I D Petrik; Y Lu
Journal:  Methods Enzymol       Date:  2016-07-26       Impact factor: 1.600

10.  Copper-sulfenate complex from oxidation of a cavity mutant of Pseudomonas aeruginosa azurin.

Authors:  Nathan A Sieracki; Shiliang Tian; Ryan G Hadt; Jun-Long Zhang; Julia S Woertink; Mark J Nilges; Furong Sun; Edward I Solomon; Yi Lu
Journal:  Proc Natl Acad Sci U S A       Date:  2014-01-03       Impact factor: 11.205

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