The overall goal of the project is to answer a key scientific question in the fields of bioenergetics and the nitrogen cycle, i.e., why a protein is proficient at O-O bond cleavage when using a heme-copper center as in heme-copper oxidases (HCO), and is effective at N-N bond formation when using a heme-non-heme iron center, as in nitric oxide reductase (NOR). We seek to overcome a critical methodological barrier to progress in this field by developing a novel biosynthetic approach that utilizes a stable, easy-to-produce, and well-characterized heme protein (myoglobin) as a scaffold for making structural and functional models of HCO and NOR. Building on the success of the last grant period when both CuB and FeB sites were designed into Mb (called CuBMb and FeBMb, respectively), as demonstrated by both spectroscopy and X-ray crystallography, site-directed mutagenesis and expressed protein ligation (EPL) will be employed to introduce natural or unnatural amino acids into the metal-binding sites. Studies of the model proteins will be carried out using spectroscopy as well as X-ray crystallography. Kinetic studies will also be performed to provide insight into the mechanisms of O2 and NO reduction. This proposal contains three specific aims that our biosynthetic approach can uniquely address when compared to other approaches: 1) elucidate structural features responsible for HCO function, specifically the roles of CuB site, the tyrosine that is covalently linked to a CuB-His ligand, and non-covalent interactions, such as water and the associated hydrogen bonding network;2) elucidate structural features responsible for NOR function, specifically the FeB site and nearby glutamate residues;and 3) examine structural and functional differences between the heme-copper center in HCO and the heme-non-heme iron center in NOR. Once the project aims are achieved, it will result in a deeper understanding of the structure and function of HCO and NOR. The placement of a heme-copper and a heme- iron center in the same protein framework, and the ability to introduce different metal ions into the CuB or FeB sites in the same protein is a unique opportunity that allows direct structural and functional comparisons of two important classes of metal-binding centers. At the same time, the project will advance our knowledge of heme protein structure, function and design in general, as the guiding principles obtained from the studies may be applicable to a broad range of other metalloproteins.

Public Health Relevance

The proposed research is relevant to health in a broad sense. HCOs are the terminal electron acceptors in the respiratory chain of all aerobic organisms and are required for aerobic life. Furthermore, deficiencies of or mutations in HCOs have been linked to Alzheimer's disease, Leigh syndrome and aging. Well-studied denitrification enzymes such as NOR may provide potential structural and spectroscopic models for mammalian enzymes that produce and utilize NO in a variety of signal transduction pathways. Therefore the work will make important contributions to healthcare, as it will provide a molecular basis for understanding two enzymes important to human health.

National Institute of Health (NIH)
National Institute of General Medical Sciences (NIGMS)
Research Project (R01)
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Macromolecular Structure and Function A Study Section (MSFA)
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Anderson, Vernon
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University of Illinois Urbana-Champaign
Schools of Arts and Sciences
United States
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Matsumura, Hirotoshi; Hayashi, Takahiro; Chakraborty, Saumen et al. (2014) The production of nitrous oxide by the heme/nonheme diiron center of engineered myoglobins (Fe(B)Mbs) proceeds through a trans-iron-nitrosyl dimer. J Am Chem Soc 136:2420-31
Chakraborty, Saumen; Reed, Julian; Ross, Matthew et al. (2014) Spectroscopic and computational study of a nonheme iron nitrosyl center in a biosynthetic model of nitric oxide reductase. Angew Chem Int Ed Engl 53:2417-21
Liu, Jing; Chakraborty, Saumen; Hosseinzadeh, Parisa et al. (2014) Metalloproteins containing cytochrome, iron-sulfur, or copper redox centers. Chem Rev 114:4366-469
Bhagi-Damodaran, Ambika; Petrik, Igor D; Marshall, Nicholas M et al. (2014) Systematic tuning of heme redox potentials and its effects on O2 reduction rates in a designed oxidase in myoglobin. J Am Chem Soc 136:11882-5
Petrik, Igor D; Liu, Jing; Lu, Yi (2014) Metalloenzyme design and engineering through strategic modifications of native protein scaffolds. Curr Opin Chem Biol 19:67-75
Yu, Yang; Mukherjee, Arnab; Nilges, Mark J et al. (2014) Direct EPR observation of a tyrosyl radical in a functional oxidase model in myoglobin during both H2O2 and O2 reactions. J Am Chem Soc 136:1174-7
Miner, Kyle D; Mukherjee, Arnab; Gao, Yi-Gui et al. (2012) A designed functional metalloenzyme that reduces O2 to H2O with over one thousand turnovers. Angew Chem Int Ed Engl 51:5589-92
Garner, Dewain K; Liang, Lei; Barrios, David A et al. (2011) Covalent Anchor Positions Play an Important Role in Tuning Catalytic Properties of a Rationally Designed MnSalen-containing Metalloenzyme. ACS Catal 1:1083-1089
Hayashi, Takahiro; Miner, Kyle D; Yeung, Natasha et al. (2011) Spectroscopic characterization of mononitrosyl complexes in heme--nonheme diiron centers within the myoglobin scaffold (Fe(B)Mbs): relevance to denitrifying NO reductase. Biochemistry 50:5939-47
Thorum, Matthew S; Anderson, Cyrus A; Hatch, Jeremy J et al. (2010) Direct, Electrocatalytic Oxygen Reduction by Laccase on Anthracene-2-methanethiol Modified Gold. J Phys Chem Lett 1:2251-2254

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