skip to main content
OSTI.GOV title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: First principles design of a core bioenergetic transmembrane electron-transfer protein

Journal Article · · Biochimica et Biophysica Acta - Bioenergetics

Here we describe the design, Escherichia coli expression and characterization of a simplified, adaptable and functionally transparent single chain 4-α-helix transmembrane protein frame that binds multiple heme and light activatable porphyrins. Such man-made cofactor-binding oxidoreductases, designed from first principles with minimal reference to natural protein sequences, are known as maquettes. This design is an adaptable frame aiming to uncover core engineering principles governing bioenergetic transmembrane electron-transfer function and recapitulate protein archetypes proposed to represent the origins of photosynthesis. This article is part of a Special Issue entitled Biodesign for Bioenergetics — the design and engineering of electronic transfer cofactors, proteins and protein networks, edited by Ronald L. Koder and J.L. Ross Anderson.

Research Organization:
Energy Frontier Research Centers (EFRC) (United States). Photosynthetic Antenna Research Center (PARC)
Sponsoring Organization:
USDOE Office of Science (SC), Basic Energy Sciences (BES)
DOE Contract Number:
SC0001035
OSTI ID:
1370964
Journal Information:
Biochimica et Biophysica Acta - Bioenergetics, Vol. 1857, Issue 5; Related Information: PARC partners with Washington University in St. Louis (lead); University of California, Riverside; University of Glasgow, UK; Los Alamos National Laboratory; University of New Mexico; New Mexico Corsortium; North Carolina State University; Northwestern University; Oak Ridge National Laboratory; University of Pennsylvania; Sandia National Laboratories; University of Sheffield, UK; ISSN 0005-2728
Publisher:
Elsevier
Country of Publication:
United States
Language:
English

References (50)

A Cytochrome b Origin of Photosynthetic Reaction Centers: an Evolutionary Link between Respiration and Photosynthesis journal October 2002
The protonmotive Q cycle: A general formulation journal November 1975
On the origin of photosynthesis as inferred from sequence analysis journal January 1997
Design and synthesis of multi-haem proteins journal March 1994
Elementary tetrahelical protein design for diverse oxidoreductase functions journal October 2013
Ferredoxin and ferredoxin-heme maquettes journal December 1996
De novo design of a non-natural fold for an iron–sulfur protein: Alpha-helical coiled-coil with a four-iron four-sulfur cluster binding site in its central core journal March 2010
Design, synthesis, and characterization of a photoactivatable flavocytochrome molecular maquette journal September 1998
Electrochemical and structural coupling of the naphthoquinone amino acid journal January 2012
Design and engineering of an O2 transport protein journal March 2009
Characterization of a helical protein designed from first principles journal August 1988
Hydrophilic to amphiphilic design in redox protein maquettes journal December 2003
Design of Amphiphilic Protein Maquettes:  Controlling Assembly, Membrane Insertion, and Cofactor Interactions journal September 2005
Design of a Functional Membrane Protein by Engineering a Heme-Binding Site in Glycophorin A journal January 2007
De Novo Design and Molecular Assembly of a Transmembrane Diporphyrin-Binding Protein Complex journal November 2010
31P NMR study of improvement in oxidative phosphorylation by vitamins K3 and C in a patient with a defect in electron transport at complex III in skeletal muscle. journal June 1984
Enzyme-free cloning: a rapid method to clone PCR products independent of vector restriction enzyme sites journal October 1999
Isolation of cell-free bacterial inclusion bodies journal January 2010
Detergent binding explains anomalous SDS-PAGE migration of membrane proteins journal January 2009
Simple Sodium Dodecyl Sulfate-Assisted Sample Preparation Method for LC-MS-Based Proteomics Applications journal March 2012
Heme binding properties of heterologously expressed spinach cytochrome b 6 : Implications for transmembrane b -type cytochrome formation journal May 2007
Comparison of NH Exchange and Circular Dichroism as Techniques for Measuring the Parameters of the Helix−Coil Transition in Peptides journal July 1997
Total Chemical Synthesis of the Integral Membrane Protein Influenza A Virus M2:  Role of Its C-Terminal Domain in Tetramer Assembly journal September 1999
pH-Dependent Tetramerization and Amantadine Binding of the Transmembrane Helix of M2 from the Influenza A Virus journal November 2000
Sequence determinants of the energetics of folding of a transmembrane four-helix-bundle protein journal June 2002
Molecular characterization of proteins in detergent solutions journal May 1974
Structural and Functional Study of Reconstituted Peripheral Benzodiazepine Receptor journal June 2001
Bio-Beads: An Efficient Strategy for Two-Dimensional Crystallization of Membrane Proteins journal April 1997
Simultaneous determination of hemes a, b, and c from pyridine hemochrome spectra journal February 1987
Biochemistry without oxygen journal March 1987
The HP-1 maquette: From an apoprotein structure to a structured hemoprotein designed to promote redox-coupled proton exchange journal March 2004
Solvation Energies of Amino Acid Side Chains and Backbone in a Family of Host−Guest Pentapeptides journal January 1996
Experimentally determined hydrophobicity scale for proteins at membrane interfaces journal October 1996
Binding-induced alterations in ultraviolet absorption of native serum albumin journal April 1968
Hydrophobic Modulation of Heme Properties in Heme Protein Maquettes journal September 2001
Quinone and non-quinone redox couples in Complex III journal October 2008
Direct Probe of Molecular Polarization in De Novo Protein–Electrode Interfaces journal May 2011
Designed Di-Heme Binding Helical Transmembrane Protein journal May 2014
De novo design of a transmembrane Zn 2+ -transporting four-helix bundle journal December 2014
Modulation of function in a minimalist heme-binding membrane protein journal February 2012
Design of Amphiphilic Protein Maquettes:  Enhancing Maquette Functionality through Binding of Extremely Hydrophobic Cofactors to Lipophilic Domains journal September 2005
Purification and Properties of an Unusual Membrane-Derived Cytochrome b-561 from the Purple Phototrophic Bacterium Rhodobacter capsulatus, Which Is Structurally Related to the Bacteriochlorophyll-Binding Protein, LHIIβ journal July 1993
Nature of biological electron transfer journal February 1992
De Novo Design of a D 2 - Symmetrical Protein that Reproduces the Diheme Four-Helix Bundle in Cytochrome bc 1 journal July 2004
Computational De Novo Design and Characterization of a Four-Helix Bundle Protein that Selectively Binds a Nonbiological Cofactor journal February 2005
De Novo Design of a Single-Chain Diphenylporphyrin Metalloprotein journal September 2007
Computational Design and Elaboration of a de Novo Heterotetrameric α-Helical Protein That Selectively Binds an Emissive Abiological (Porphinato)zinc Chromophore journal March 2010
Computational de Novo Design and Characterization of a Protein That Selectively Binds a Highly Hyperpolarizable Abiological Chromophore journal September 2013
Design and engineering of a man-made diffusive electron-transport protein journal May 2016
Constructing a man-made c-type cytochrome maquette in vivo: electron transfer, oxygen transport and conversion to a photoactive light harvesting maquette. journal January 2014