Amy Clarke

ORCID: 0009-0006-1319-1311
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About
Contact & Profiles
Research Areas
  • Ion Channels and Receptors
  • Lipid Membrane Structure and Behavior
  • Additive Manufacturing Materials and Processes
  • Muscle metabolism and nutrition
  • Neuroscience and Neuropharmacology Research
  • High Entropy Alloys Studies
  • Neurotransmitter Receptor Influence on Behavior
  • Ion channel regulation and function
  • Neurobiology and Insect Physiology Research
  • Cardiac electrophysiology and arrhythmias
  • Genetics and Neurodevelopmental Disorders
  • Metabolism and Genetic Disorders
  • Genetic Neurodegenerative Diseases
  • RNA Interference and Gene Delivery
  • Advanced materials and composites
  • Protein Structure and Dynamics
  • Advanced Chemical Sensor Technologies
  • Welding Techniques and Residual Stresses
  • Receptor Mechanisms and Signaling
  • Pesticide Residue Analysis and Safety
  • Drug Transport and Resistance Mechanisms
  • Pharmacological Effects and Assays
  • Biochemical and Molecular Research
  • Nanofabrication and Lithography Techniques
  • DNA and Nucleic Acid Chemistry

Medical University of Vienna
2022-2025

Colorado School of Mines
2020-2024

Medical University of Graz
2023

Los Alamos National Laboratory
2016

Abstract The transient receptor potential canonical type 3 (TRPC3) channel plays a pivotal role in regulating neuronal excitability the brain via its constitutive activity. is intricately regulated by lipids and has previously been demonstrated to be positively modulated PIP 2 . Using molecular dynamics simulations patch clamp techniques, we reveal that predominantly interacts with TRPC3 at L3 lipid binding site, located intersection of pre-S1 S1 helices. We demonstrate sensing involves...

10.1038/s41467-024-49396-6 article EN cc-by Nature Communications 2024-06-18

Coordination of lipids within transient receptor potential canonical channels (TRPCs) is essential for their Ca2+ signaling function. Single particle cryo-EM studies identified two lipid interaction sites, designated L1 and L2, which are proposed to accommodate diacylglycerols (DAGs). To explore the role L2 in TRPC3 function, we combined structure-guided mutagenesis electrophysiological recording with molecular dynamics (MD) simulations. MD simulations indicate rapid DAG accumulation both...

10.15252/embr.202154276 article EN cc-by EMBO Reports 2022-05-23

The serotonin transporter (SERT) is a member of the Solute Carrier 6 (SLC6) family and responsible for maintaining appropriate level in brain. Dysfunction SERT has been linked to several neuropsychiatric disorders, including depression, anxiety obsessive-compulsive disorder. Therefore, an in-depth understanding mechanism on atomistic level, coupled with quantification dynamics associated free energies required. Here, we constructed Markov state models (MSMs) from extensive unbiased molecular...

10.1111/jnc.16061 article EN cc-by Journal of Neurochemistry 2024-02-05

<title>Abstract</title> SbmA is a membrane transporter from <italic>Escherichia coli</italic> that imports antimicrobial peptides. Although the protein secondary energized by proton gradient, it structurally related to transmembrane domain (TMD) of ATP-binding cassette (ABC) transporters. therefore bridges structural divide between primary and However, remained unclear, if also shares mechanism alternating access with ABC transporters, because only single (outward-open) state has been...

10.21203/rs.3.rs-5827499/v1 preprint EN cc-by Research Square (Research Square) 2025-02-03

In chordates, energy buffering is achieved in part through phosphocreatine, which requires cellular uptake of creatine by the membrane-embedded transporter (CRT1/SLC6A8). Mutations human slc6a8 lead to deficiency syndrome, for there only limited treatment. Here, we used a combined homology modeling, molecular dynamics, and experimental approach generate structural model CRT1. Our observations support following conclusions: contrary previous proposals, C144, key residue substrate binding...

10.1002/pro.4842 article EN cc-by Protein Science 2023-11-30

Transient receptor potential canonical 3 (TRPC3) channel belongs to the superfamily of transient (TRP) channels which mediate Ca

10.3390/biom12070890 article EN cc-by Biomolecules 2022-06-25

The creatine transporter-1 (CRT-1/SLC6A8) maintains the uphill transport of into cells against a steep concentration gradient. Cellular accumulation is required to support ATP-buffering by phosphocreatine. More than 60 compounds have been explored in past for their ability inhibit cellular uptake, but number active very limited. Here, we show that all currently known inhibitors are full alternative substrates. We analyzed structure-activity relation inhibition CRT-1 guide rational approach...

10.2139/ssrn.4725368 preprint EN 2024-01-01

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10.2139/ssrn.4773562 preprint EN 2024-01-01

The creatine transporter-1 (CRT-1/SLC6A8) maintains the uphill transport of into cells against a steep concentration gradient. Cellular accumulation is required to support ATP-buffering by phosphocreatine. More than 60 compounds have been explored in past for their ability inhibit cellular uptake, but number active very limited. Here, we show that all currently known inhibitors are full alternative substrates. We analyzed structure-activity relationship inhibition CRT-1 guide rational...

10.1124/molpharm.124.000995 article EN Molecular Pharmacology 2024-09-25

Complex geometries and topology optimisations for weight materials savings are leading drivers the additive manufacturing of Ni-based superalloys through electron beam powder bed fusion (PBF-EB). However, there is a marked departure in these geometrically complex components with respect to thermal signatures understood commonly studied prismatic PBF-EB test coupons. This often results unaccounted site-specific microstructure-property variations builds. Here, effects topological changes, such...

10.1016/j.addma.2023.103749 article EN cc-by Additive manufacturing 2023-08-01

<title>Abstract</title> The transient receptor potential canonical type 3 (TRPC3) channel plays a pivotal role in regulating neuronal excitability the brain via its constitutive activity. is intricately regulated by lipids and has previously been demonstrated to be positively modulated PIP<sub>2</sub>. Using molecular dynamics simulations patch clamp techniques, we reveal that PIP<sub>2</sub> predominantly interacts with TRPC3 at L3 lipid binding site, located intersection of pre-S1 S1...

10.21203/rs.3.rs-3552323/v1 preprint EN cc-by Research Square (Research Square) 2023-12-04
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