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Fatima S, Mehrafrooz B, Boggs DG, Ali N, Singh S, Thielges MC, Bridwell-Rabb J, Aksimentiev A, Olshansky L. Conformation-Dependent Hydrogen-Bonding Interactions in a Switchable Artificial Metalloprotein. Biochemistry 2024; 63:2040-2050. [PMID: 39088332 DOI: 10.1021/acs.biochem.4c00209] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/03/2024]
Abstract
Hydrogen-bonding (H-bonding) interactions in metalloprotein active sites can critically regulate enzyme function. Changes in the protein structure triggered by interplay with substrates, products, and partner proteins are often translated to the metallocofactor by way of specific changes in H-bond networks connected to the active site. However, the complexities of metalloprotein architecture and mechanism often preclude our ability to define the precise molecular interactions giving rise to these intricate regulatory pathways. To address this shortcoming, we have developed conformationally switchable artificial metalloproteins (swArMs) in which allosteric Gln-binding triggers protein conformational changes that impact the microenvironment surrounding an installed metallocofactor. Herein, we report a combined structural, spectroscopic, and computational approach to enhance the conformation-dependent changes in H-bond interactions surrounding the metallocofactor site of a swArM. Structure-informed molecular dynamics simulations were employed to predict point mutations that could enhance active site H-bond interactions preferentially in the Gln-bound holo-conformation of the swArM. Testing our predictions via the unique infrared spectral signals associated with the metallocofactor site, we have identified three key residues capable of imparting conformational control over the metallocofactor microenvironment. The resultant swArMs not only model biologically relevant structural regulation but also provide an enhanced Gln-responsive biological probe to be leveraged in future biosensing applications.
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Affiliation(s)
- Saman Fatima
- Department of Chemistry, Center for Biophysics and Quantitative Biology, Materials Research Laboratory, and the Beckman Institute for Advanced Science and Technology, University of Illinois Urbana-Champaign, 600 S. Mathews Ave., Urbana, Illinois 61801, United States
| | - Behzad Mehrafrooz
- Beckman Institute for Advanced Science and Technology, Center for Biophysics and Quantitative Biology, and Department of Physics, University of Illinois Urbana-Champaign, Urbana, Illinois 61801, United States
| | - David G Boggs
- Department of Chemistry, University of Michigan, 930 N. University Ave., Ann Arbor, Michigan 48109, United States
| | - Noor Ali
- Department of Chemistry, Indiana University, 800 E. Kirkwood Ave., Bloomington, Indiana 47405, United States
| | - Swapnil Singh
- Department of Chemistry, Indiana University, 800 E. Kirkwood Ave., Bloomington, Indiana 47405, United States
| | - Megan C Thielges
- Department of Chemistry, Indiana University, 800 E. Kirkwood Ave., Bloomington, Indiana 47405, United States
| | - Jennifer Bridwell-Rabb
- Department of Chemistry, University of Michigan, 930 N. University Ave., Ann Arbor, Michigan 48109, United States
| | - Aleksei Aksimentiev
- Beckman Institute for Advanced Science and Technology, Center for Biophysics and Quantitative Biology, and Department of Physics, University of Illinois Urbana-Champaign, Urbana, Illinois 61801, United States
| | - Lisa Olshansky
- Department of Chemistry, Center for Biophysics and Quantitative Biology, Materials Research Laboratory, and the Beckman Institute for Advanced Science and Technology, University of Illinois Urbana-Champaign, 600 S. Mathews Ave., Urbana, Illinois 61801, United States
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Fatima S, Boggs DG, Ali N, Thompson PJ, Thielges MC, Bridwell-Rabb J, Olshansky L. Engineering a Conformationally Switchable Artificial Metalloprotein. J Am Chem Soc 2022; 144:21606-21616. [DOI: 10.1021/jacs.2c08885] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Affiliation(s)
- Saman Fatima
- Department of Chemistry, University of Illinois Urbana−Champaign, 600 S. Mathews Avenue, Urbana, Illinois61801, United States
| | - David G. Boggs
- Department of Chemistry, University of Michigan, 930 N. University Avenue, Ann Arbor, Michigan48109, United States
| | - Noor Ali
- Department of Chemistry, Indiana University, 800 E. Kirkwood Avenue, Bloomington, Indiana47405, United States
| | - Peter J. Thompson
- Center for Biophysics and Quantitative Biology, University of Illinois Urbana−Champaign, 600 S. Mathews Avenue, Urbana, Illinois61801, United States
| | - Megan C. Thielges
- Department of Chemistry, Indiana University, 800 E. Kirkwood Avenue, Bloomington, Indiana47405, United States
| | - Jennifer Bridwell-Rabb
- Department of Chemistry, University of Michigan, 930 N. University Avenue, Ann Arbor, Michigan48109, United States
| | - Lisa Olshansky
- Department of Chemistry, University of Illinois Urbana−Champaign, 600 S. Mathews Avenue, Urbana, Illinois61801, United States
- Center for Biophysics and Quantitative Biology, University of Illinois Urbana−Champaign, 600 S. Mathews Avenue, Urbana, Illinois61801, United States
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Wang R, Heng T, Yang D, Zhang L, Lu Y. Crystal structure of 4-amino- N-(2-pyrimidinyl)benzenesulfonamide–1,4-dioxane (1/1), C 14H 18N 4O 4S. Z KRIST-NEW CRYST ST 2021. [DOI: 10.1515/ncrs-2021-0032] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Abstract
C14H18N4O4S, triclinic,
P
1
‾
$P\bar{1}$
(no. 2), a = 9.027(1) Å, b = 10.658(1) Å, c = 16.358(1) Å, α = 90.083(6)°, β = 92.278(6)°, γ = 103.085(6)°, V = 1531.66(19) Å3, Z = 4, R
gt
(F) = 0.0419, wR
ref
(F
2) = 0.1175, T = 110.9(3) K.
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Affiliation(s)
- Ruonan Wang
- Beijing City Key Laboratory of Polymorphic Drugs, Center of Pharmaceutical Polymorphs, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College , Beijing , China
| | - Tianyu Heng
- Beijing City Key Laboratory of Polymorphic Drugs, Center of Pharmaceutical Polymorphs, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College , Beijing , China
| | - Dezhi Yang
- Beijing City Key Laboratory of Polymorphic Drugs, Center of Pharmaceutical Polymorphs, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College , Beijing , China
| | - Li Zhang
- Beijing City Key Laboratory of Polymorphic Drugs, Center of Pharmaceutical Polymorphs, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College , Beijing , China
| | - Yang Lu
- Beijing City Key Laboratory of Polymorphic Drugs, Center of Pharmaceutical Polymorphs, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College , Beijing , China
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Bourosh P, Bologa O, Deseatnic-Ciloci A, Tiurina J, Bulhac I. Synthesis, structure, and biological properties of mixed cobalt(III) dioximates with guanidine derivatives. RUSS J COORD CHEM+ 2017. [DOI: 10.1134/s1070328417090019] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Vitiu AA, Coropceanu EB, Bourosh PN. Crystal structure of Co(III) α-dimethylglyoximates with imidazole. J STRUCT CHEM+ 2017. [DOI: 10.1134/s0022476617030131] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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