scholarly journals Sorption and Transport of Vapors in ZIF-11: Adsorption, Diffusion, and Linker Flexibility

2019 ◽  
Author(s):  
Brian R. Pimentel ◽  
Melinda L. Jue ◽  
Er-Kang Zhou ◽  
Ross J. Verploegh ◽  
Johannes Leisen ◽  
...  
Keyword(s):  
Linker Flexibility

scholarly journals Alterations in Linker Flexibility Suppress DNA Topoisomerase I Mutant-induced Cell Lethality

2007 ◽  
Vol 282 (13) ◽  
pp. 9855-9864 ◽  
Author(s):  
Carmen Losasso ◽  
Erica Cretaio ◽  
Komaraiah Palle ◽  
Luca Pattarello ◽  
Mary-Ann Bjornsti ◽  
...  
Keyword(s):  
Topoisomerase I ◽  
Dna Topoisomerase I ◽  
Dna Topoisomerase ◽  
Cell Lethality ◽  
Linker Flexibility

Preparation of Supramolecular Polymers from a Cyclodextrin Dimer and Ditopic Guest Molecules: Control of Structure by Linker Flexibility

2005 ◽  
Vol 38 (14) ◽  
pp. 5897-5904 ◽  
Author(s):  
Kahori Ohga ◽  
Yoshinori Takashima ◽  
Hirokazu Takahashi ◽  
Yoshinori Kawaguchi ◽  
Hiroyasu Yamaguchi ◽  
...  
Keyword(s):  
Supramolecular Polymers ◽  
Guest Molecules ◽  
Cyclodextrin Dimer ◽  
Linker Flexibility

scholarly journals Altered dynamics may drift pathological fibrillization in membraneless organelles

2019 ◽  
Author(s):  
B. Tüű-Szabó ◽  
G. Hoffka ◽  
N. Duro ◽  
L. Koczy ◽  
M. Fuxreiter
Keyword(s):  
Phase Transition ◽  
Weak Interaction ◽  
Driving Forces ◽  
Interaction Network ◽  
Material State ◽  
Membrane Bound ◽  
Cellular Compartments ◽  
Rescue Mechanism ◽  
Fuzzy Framework ◽  
Linker Flexibility

AbstractProtein phase transition can generate non-membrane bound cellular compartments, which can convert from liquid-like to solid-like states. While the molecular driving forces of phase separation have been largely understood, much less is known about the mechanisms of material-state conversion. We apply a recently developed algorithm to describe the weak interaction network of multivalent motifs, and simulate the effect of pathological mutations. We demonstrate that linker dynamics is critical to the material-state of biomolecular condensates. We show that linker flexibility/mobility is a major regulator of the weak, heterogeneous meshwork of multivalent motifs, which promotes phase transition and maintains a liquid-like state. Decreasing linker dynamics increases the propensity of amyloid-like fragments via hampering the motif-exchange and reorganization of the weak interaction network. In contrast, increasing linker mobility may compensate rigidifying mutations, suggesting that the meshwork of weak, variable interactions may provide a rescue mechanism from aggregation. Motif affinity, on the other hand, has a moderate impact on fibrillization. Here we demonstrate that the fuzzy framework provides an efficient approach to handle the intricate organization of membraneless organelles, and could also be applicable to screen for pathological effects of mutations.

scholarly journals Concatenated γ-aminobutyric acid type A receptors revisited: Finding order in chaos

2019 ◽  
Vol 151 (6) ◽  
pp. 798-819 ◽  
Author(s):  
Vivian Wan Yu Liao ◽  
Han Chow Chua ◽  
Natalia Magdalena Kowal ◽  
Mary Chebib ◽  
Thomas Balle ◽  
...  
Keyword(s):  
Type A ◽  
Lessons Learned ◽  
Aminobutyric Acid ◽  
Functional Responses ◽  
Inhibitory Neurotransmitter ◽  
Precise Control ◽  
Functional Studies ◽  
Acid Type ◽  
Subunit Stoichiometry ◽  
Linker Flexibility

γ-aminobutyric acid type A receptors (GABAARs), the major inhibitory neurotransmitter receptors in the mammalian central nervous system, are arguably the most challenging member of the pentameric Cys-loop receptors to study due to their heteromeric structure. When two or more subunits are expressed together in heterologous systems, receptors of variable subunit type, ratio, and orientation can form, precluding accurate interpretation of data from functional studies. Subunit concatenation is a technique that involves the linking of individual subunits and in theory allows the precise control of the uniformity of expressed receptors. In reality, the resulting concatemers from widely used constructs are flexible in their orientation and may therefore assemble with themselves or free GABAAR subunits in unexpected ways. In this study, we examine functional responses of receptors from existing concatenated constructs and describe refinements necessary to allow expression of uniform receptor populations. We find that dimers from two commonly used concatenated constructs, β-23-α and α-10-β, assemble readily in both the clockwise and the counterclockwise orientations when coexpressed with free subunits. Furthermore, we show that concatemers formed from new tetrameric α-10-β-α-β and α-10-β-α-γ constructs also assemble in both orientations with free subunits to give canonical αβγ receptors. To restrict linker flexibility, we systematically shorten linker lengths of dimeric and pentameric constructs and find optimized constructs that direct the assembly of GABAARs only in one orientation, thus eliminating the ambiguity associated with previously described concatemers. Based on our data, we revisit some noncanonical GABAAR configurations proposed in recent years and explain how the use of some concatenated constructs may have led to wrong conclusions. Our results help clarify current contradictions in the literature regarding GABAAR subunit stoichiometry and arrangement. The lessons learned from this study may guide future efforts in understanding other related heteromeric receptors.

Understanding the role of linker flexibility in soft porous coordination polymers

2020 ◽  
Vol 5 (1) ◽  
pp. 284-293 ◽  
Author(s):  
Yamil J. Colón ◽  
Shuhei Furukawa
Keyword(s):  
Coordination Polymers ◽  
Design Parameter ◽  
Porous Coordination Polymers ◽  
Crystalline Materials ◽  
Linker Flexibility

Linker flexibility is a key design parameter that can lead to crystalline materials or amorphous soft porous coordination polymers.

scholarly journals Active inclusion bodies of acid phosphatase PhoC: aggregation induced by GFP fusion and activities modulated by linker flexibility

2013 ◽  
Vol 12 (1) ◽  
pp. 25 ◽  
Author(s):  
Ziliang Huang ◽  
Chong Zhang ◽  
Shuo Chen ◽  
Fengchun Ye ◽  
Xin-Hui Xing
Keyword(s):  
Acid Phosphatase ◽  
Inclusion Bodies ◽  
Active Inclusion Bodies ◽  
Linker Flexibility

scholarly journals Linker flexibility of IVS3-S4 loops modulates voltage-dependent activation of L-type Ca2+ channels

Channels ◽  
2016 ◽  
Vol 11 (1) ◽  
pp. 34-45 ◽  
Author(s):  
Nan Liu ◽  
Yuxia Liu ◽  
Yaxiong Yang ◽  
Xiaodong Liu
Keyword(s):  
Voltage Dependent ◽  
Linker Flexibility ◽  
Ca2 Channels

Effect of linker flexibility and length on the functionality of a cytotoxic engineered antibody fragment

2015 ◽  
Vol 199 ◽  
pp. 90-97 ◽  
Author(s):  
Maximilian Klement ◽  
Chengcheng Liu ◽  
Bernard Liat Wen Loo ◽  
Andre Boon-Hwa Choo ◽  
Dave Siak-Wei Ow ◽  
...  
Keyword(s):  
Antibody Fragment ◽  
Linker Flexibility

scholarly journals Flexibility of NS5 Methyltransferase-Polymerase Linker Region Is Essential for Dengue Virus Replication

2015 ◽  
Vol 89 (20) ◽  
pp. 10717-10721 ◽  
Author(s):  
Yongqian Zhao ◽  
Tingjin Sherryl Soh ◽  
Kitti Wing Ki Chan ◽  
Sarah Suet Yin Fung ◽  
Kunchithapadam Swaminathan ◽  
...  
Keyword(s):  
Dengue Virus ◽  
Virus Replication ◽  
Reverse Genetics ◽  
Site Directed Mutagenesis ◽  
Linker Region ◽  
Conformational Plasticity ◽  
Attenuated Viruses ◽  
Conformational Regulation ◽  
Conserved Residue ◽  
Linker Flexibility

We examined the function of the conserved Val/Ile residue within the dengue virus NS5 interdomain linker (residues 263 to 272) by site-directed mutagenesis. Gly substitution or Gly/Pro insertion after the conserved residue increased the linker flexibility and created slightly attenuated viruses. In contrast, Pro substitution abolished virus replication by imposing rigidity in the linker and restricting NS5's conformational plasticity. Our biochemical and reverse genetics experiments demonstrate that NS5 utilizes conformational regulation to achieve optimum viral replication.

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