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1.
Chem Soc Rev ; 51(5): 1659-1684, 2022 Mar 07.
Article in English | MEDLINE | ID: mdl-35166276

ABSTRACT

We present a review of the Unitary Coupled Cluster (UCC) ansatz and related ansätze which are used to variationally solve the electronic structure problem on quantum computers. A brief history of coupled cluster (CC) methods is provided, followed by a broad discussion of the formulation of CC theory. This includes touching on the merits and difficulties of the method and several variants, UCC among them, in the classical context, to motivate their applications on quantum computers. In the core of the text, the UCC ansatz and its implementation on a quantum computer are discussed at length, in addition to a discussion on several derived and related ansätze specific to quantum computing. The review concludes with a unified perspective on the discussed ansätze, attempting to bring them under a common framework, as well as with a reflection upon open problems within the field.

2.
Chem Rev ; 119(19): 10856-10915, 2019 10 09.
Article in English | MEDLINE | ID: mdl-31469277

ABSTRACT

Practical challenges in simulating quantum systems on classical computers have been widely recognized in the quantum physics and quantum chemistry communities over the past century. Although many approximation methods have been introduced, the complexity of quantum mechanics remains hard to appease. The advent of quantum computation brings new pathways to navigate this challenging and complex landscape. By manipulating quantum states of matter and taking advantage of their unique features such as superposition and entanglement, quantum computers promise to efficiently deliver accurate results for many important problems in quantum chemistry, such as the electronic structure of molecules. In the past two decades, significant advances have been made in developing algorithms and physical hardware for quantum computing, heralding a revolution in simulation of quantum systems. This Review provides an overview of the algorithms and results that are relevant for quantum chemistry. The intended audience is both quantum chemists who seek to learn more about quantum computing and quantum computing researchers who would like to explore applications in quantum chemistry.


Subject(s)
Models, Chemical , Quantum Theory , Algorithms , Computing Methodologies , Molecular Dynamics Simulation
3.
FEBS Lett ; 591(5): 706-717, 2017 03.
Article in English | MEDLINE | ID: mdl-28130840

ABSTRACT

While many antimicrobial peptides (AMPs) disrupt bacterial membranes, some translocate into bacteria and interfere with intracellular processes. Buforin II and DesHDAP1 are thought to kill bacteria by interacting with nucleic acids. Here, molecular modeling and experimental measurements are used to show that neither nucleic acid binding peptide selectively binds DNA sequences. Simulations and experiments also show that changing lysines to arginines enhances DNA binding, suggesting that including additional guanidinium groups is a potential strategy to engineer more potent AMPs. Moreover, the lack of binding specificity may make it more difficult for bacteria to evolve resistance to these and other similar AMPs.


Subject(s)
Anti-Bacterial Agents/chemistry , Arginine/chemistry , DNA, Bacterial/chemistry , Histones/chemistry , Lysine/chemistry , Proteins/chemistry , Amino Acid Sequence , Amino Acid Substitution , Animals , Anti-Bacterial Agents/chemical synthesis , Anti-Bacterial Agents/isolation & purification , Anura/physiology , Histones/chemical synthesis , Histones/isolation & purification , Kinetics , Molecular Dynamics Simulation , Molecular Mimicry , Protein Binding , Protein Structure, Secondary , Proteins/chemical synthesis , Proteins/isolation & purification , Structure-Activity Relationship , Thermodynamics
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