Induced Self-Assembly of Platinum(II) Alkynyl Complexes through Specific Interactions between Citrate and Guanidinium for Proof-of-Principle Detection of Citrate and an Assay of Citrate Lyase

2014 ◽  
Vol 20 (40) ◽  
pp. 13016-13027 ◽  
Author(s):  
Clive Yik-Sham Chung ◽  
Vivian Wing-Wah Yam
Keyword(s):  
Self Assembly ◽  
Specific Interactions ◽  
Citrate Lyase ◽  
Proof Of Principle

scholarly journals Quantum Dots—Assisted 2D Fluorescence for Pattern Based Sensing of Amino Acids, Oligopeptides and Neurotransmitters

Sensors ◽  
2019 ◽  
Vol 19 (17) ◽  
pp. 3655 ◽  
Author(s):  
Marcin Zabadaj ◽  
Patrycja Ciosek-Skibińska
Keyword(s):  
Amino Acids ◽  
Quantum Dots ◽  
Emission Spectra ◽  
Specific Interactions ◽  
High Quantum Yield ◽  
Huge Amount ◽  
Broad Absorption ◽  
Amount Of Information ◽  
Decay Times ◽  
Proof Of Principle

Quantum dots (QDs) are very attractive nanomaterials for analytical chemistry, due to high photostability, large surface area featuring numerous ways of bioconjugation with biomolecules, usually high quantum yield and long decay times. Their broad absorption spectra and narrow, sharp emission spectra of size-tunable fluorescence make them ideal tools for pattern-based sensing. However, almost always they are applied for specific sensing with zero-dimensional (0D) signal reporting (only peak heights or peak shifts are considered), without taking advantage of greater amount of information hidden in 1D signal (emission spectra), or huge amount of information hidden in 2D fluorescence maps (Excitation-Emission Matrixes, EEMs). Therefore, in this work we propose opposite strategy—non-specific interactions of QDs, which are usually avoided and regarded as their disadvantage, were exploited here for 2D fluorescence fingerprinting. Analyte-specific multivariate fluorescence response of QDs is decoded with the use of Partial Least Squares—Discriminant Analysis. Even though only one type of QDs is studied, the proposed pattern-based method enables to obtain satisfactory accuracy for all studied compounds—various neurotransmitters, amino-acids and oligopeptides. This is a proof of principle of the possibility of the identification of various bioanalytes by such fluorescence fingerprinting with the use of QDs.

scholarly journals How electrostatic networks modulate specificity and stability of collagen

2018 ◽  
Vol 115 (24) ◽  
pp. 6207-6212 ◽  
Author(s):  
Hongning Zheng ◽  
Cheng Lu ◽  
Jun Lan ◽  
Shilong Fan ◽  
Vikas Nanda ◽  
...  
Keyword(s):  
Extracellular Matrix ◽  
Hydrogen Bonding ◽  
High Resolution ◽  
Predictive Model ◽  
Self Assembly ◽  
Structural Information ◽  
Atomistic Simulations ◽  
Specific Interactions ◽  
Collagen Stability ◽  
Resolution Structure

One-quarter of the 28 types of natural collagen exist as heterotrimers. The oligomerization state of collagen affects the structure and mechanics of the extracellular matrix, providing essential cues to modulate biological and pathological processes. A lack of high-resolution structural information limits our mechanistic understanding of collagen heterospecific self-assembly. Here, the 1.77-Å resolution structure of a synthetic heterotrimer demonstrates the balance of intermolecular electrostatics and hydrogen bonding that affects collagen stability and heterospecificity of assembly. Atomistic simulations and mutagenesis based on the solved structure are used to explore the contributions of specific interactions to energetics. A predictive model of collagen stability and specificity is developed for engineering novel collagen structures.

Procollagen VII Self-Assembly Depends on Site-Specific Interactions and Is Promoted by Cleavage of the NC2 Domain with Procollagen C-Proteinase†

Biochemistry ◽  
2003 ◽  
Vol 42 (39) ◽  
pp. 11434-11442 ◽  
Author(s):  
Morgana Colombo ◽  
Raymond J. Brittingham ◽  
John F. Klement ◽  
Ireneusz Majsterek ◽  
David E. Birk ◽  
...  
Keyword(s):  
Self Assembly ◽  
Specific Interactions ◽  
Site Specific

scholarly journals Structure of the SAS-6 cartwheel hub from Leishmania major

eLife ◽  
2014 ◽  
Vol 3 ◽  
Author(s):  
Mark van Breugel ◽  
Rainer Wilcken ◽  
Stephen H McLaughlin ◽  
Trevor J Rutherford ◽  
Christopher M Johnson
Keyword(s):  
Small Molecules ◽  
Self Assembly ◽  
Leishmania Major ◽  
Cell Organelles ◽  
Cylindrical Cell ◽  
X Ray ◽  
Cilia And Flagella ◽  
Proof Of Principle

Centrioles are cylindrical cell organelles with a ninefold symmetric peripheral microtubule array that is essential to template cilia and flagella. They are built around a central cartwheel assembly that is organized through homo-oligomerization of the centriolar protein SAS-6, but whether SAS-6 self-assembly can dictate cartwheel and thereby centriole symmetry is unclear. Here we show that Leishmania major SAS-6 crystallizes as a 9-fold symmetric cartwheel and provide the X-ray structure of this assembly at a resolution of 3.5 Å. We furthermore demonstrate that oligomerization of Leishmania SAS-6 can be inhibited by a small molecule in vitro and provide indications for its binding site. Our results firmly establish that SAS-6 can impose cartwheel symmetry on its own and indicate how this process might occur mechanistically in vivo. Importantly, our data also provide a proof-of-principle that inhibition of SAS-6 oligomerization by small molecules is feasible.

scholarly journals Information capacity of specific interactions

2016 ◽  
Vol 113 (21) ◽  
pp. 5841-5846 ◽  
Author(s):  
Miriam H. Huntley ◽  
Arvind Murugan ◽  
Michael P. Brenner
Keyword(s):  
Self Assembly ◽  
Physical Parameters ◽  
Specific Interactions ◽  
Color Coding ◽  
Chemical Mechanisms ◽  
Experimental Systems ◽  
Shape Coding ◽  
Target Binding ◽  
Strongly Sublinear ◽  
Physical And Chemical

Specific interactions are a hallmark feature of self-assembly and signal-processing systems in both synthetic and biological settings. Specificity between components may arise from a wide variety of physical and chemical mechanisms in diverse contexts, from DNA hybridization to shape-sensitive depletion interactions. Despite this diversity, all systems that rely on interaction specificity operate under the constraint that increasing the number of distinct components inevitably increases off-target binding. Here we introduce “capacity,” the maximal information encodable using specific interactions, to compare specificity across diverse experimental systems and to compute how specificity changes with physical parameters. Using this framework, we find that “shape” coding of interactions has higher capacity than chemical (“color”) coding because the strength of off-target binding is strongly sublinear in binding-site size for shapes while being linear for colors. We also find that different specificity mechanisms, such as shape and color, can be combined in a synergistic manner, giving a capacity greater than the sum of the parts.

Self-Assembly and Raman Spectroscopy of Additive Coated Nanocrystals

2009 ◽  
Vol 1176 ◽  
Author(s):  
Julien Romann ◽  
Virginie Chevallier ◽  
Alexandre Merlen ◽  
Jean-Christophe Valmalette
Keyword(s):  
Raman Spectroscopy ◽  
Self Assembly ◽  
Specific Interactions ◽  
Assembly Process ◽  
Copper Oxalate

AbstractCopper oxalate 1 �m-sized nanocrystalline assemblies with several shapes (cushions, lenses, drilled cushions, and square rods) have been obtained by aqueous precipitation without additive, with glycerol, with PEG and with HPMC. Respective influences of these additives on the nanocrystals self-assembly are suggested from the obtained particles morphologies to provide a better understanding of this assembly process. Raman spectroscopy is used to highlight fluorescence occurring on the copper oxalate samples synthesized with additives. This additive induced fluorescence is suggested to result from specific interactions between the nanocrystals and the adsorbed additives.

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