scholarly journals Recruitment of SMRT/N-CoR-mSin3A-HDAC-repressing complexes is not a general mechanism for BTB/POZ transcriptional repressors: The case of HIC-1 and gamma FBP-B

1999 ◽  
Vol 96 (26) ◽  
pp. 14831-14836 ◽  
Author(s):  
S. Deltour ◽  
C. Guerardel ◽  
D. Leprince
Keyword(s):  
General Mechanism ◽  
Transcriptional Repressors

scholarly journals Structural basis for recognition of diverse transcriptional repressors by the TOPLESS family of corepressors

2015 ◽  
Vol 1 (6) ◽  
pp. e1500107 ◽  
Author(s):  
Jiyuan Ke ◽  
Honglei Ma ◽  
Xin Gu ◽  
Adam Thelen ◽  
Joseph S. Brunzelle ◽  
...  
Keyword(s):  
Stress Responses ◽  
Structural Basis ◽  
General Mechanism ◽  
Auxin Signaling ◽  
Ethylene Response Factor ◽  
Large Set ◽  
Transcriptional Repressors ◽  
Sequence Alignments ◽  
Amino Terminal ◽  
Transcriptional Corepressors

TOPLESS (TPL) and TOPLESS-related (TPR) proteins comprise a conserved family of plant transcriptional corepressors that are related to Tup1, Groucho, and TLE (transducin-like enhancer of split) corepressors in yeast, insects, and mammals. In plants, TPL/TPR corepressors regulate development, stress responses, and hormone signaling through interaction with small ethylene response factor–associated amphiphilic repression (EAR) motifs found in diverse transcriptional repressors. How EAR motifs can interact with TPL/TPR proteins is unknown. We confirm the amino-terminal domain of the TPL family of corepressors, which we term TOPLESS domain (TPD), as the EAR motif–binding domain. To understand the structural basis of this interaction, we determined the crystal structures of the TPD of rice (Os) TPR2 in apo (apo protein) state and in complexes with the EAR motifs from Arabidopsis NINJA (novel interactor of JAZ), IAA1 (auxin-responsive protein 1), and IAA10, key transcriptional repressors involved in jasmonate and auxin signaling. The OsTPR2 TPD adopts a new fold of nine helices, followed by a zinc finger, which are arranged into a disc-like tetramer. The EAR motifs in the three different complexes adopt a similar extended conformation with the hydrophobic residues fitting into the same surface groove of each OsTPR2 monomer. Sequence alignments and structure-based mutagenesis indicate that this mode of corepressor binding is highly conserved in a large set of transcriptional repressors, thus providing a general mechanism for gene repression mediated by the TPL family of corepressors.

Phosphotyrosine-Dependent Signaling: the Role of CoREST/REST Transcriptional Repressors in Neuroblastoma

2017 ◽  
Author(s):  
TL Vu-Han ◽  
S Buhs ◽  
H Gerull ◽  
M Horstmann ◽  
P Nollau
Keyword(s):  
Transcriptional Repressors

Further Evidence for Energy Landscape Flattening in the Superionic Argyrodites Li6+xP1−xMxS5I (M = Si, Ge, Sn)

2019 ◽  
Author(s):  
Saneyuki Ohno ◽  
Bianca Helm ◽  
Till Fuchs ◽  
Georg Dewald ◽  
Marvin Kraft ◽  
...  
Keyword(s):  
Solid State ◽  
Activation Barrier ◽  
Energy Landscape ◽  
General Mechanism ◽  
Ionic Conductors ◽  
Energy Storage Devices ◽  
Ion Conductor ◽  
Storage Devices ◽  
Open Questions ◽  
Sudden Decrease

<p>All-solid-state batteries are promising candidates for next-generation energy storage devices. Although the list of candidate materials for solid electrolytes has grown in the past decade, there are still many open questions concerning the mechanisms behind ionic migration in materials. In particular, the lithium thiophosphate family of materials has shown very promising properties for solid-state battery applications. Recently, the Ge-substituted Li<sub>6</sub>PS<sub>5</sub>I argyrodite was shown to be a very fast Li-ion conductor, despite the poor ionic conductivity of the unsubstituted Li<sub>6</sub>PS<sub>5</sub>I. Therein, the conductivity was enhanced by over three orders of magnitude due to the emergence of I<sup>−</sup>/S<sup>2−</sup>exchange, <i>i.e.</i>site-disorder, which led to a sudden decrease of the activation barrier with a concurrent flattening of the energy landscapes. Inspired by this work, two series of elemental substitutions in Li<sub>6+<i>x</i></sub>P<sub>1−<i>x</i></sub><i>M<sub>x</sub></i>S<sub>5</sub>I (<i>M</i>= Si and Sn) were investigated in this study and compared to the Ge-analogue. A sharp reduction in the activation energy was observed at the same <i>M</i><sup>4+</sup>/P<sup>5+</sup>composition as previously found in the Ge-analogue, suggesting a more general mechanism at play. Furthermore, structural analyses with X-ray and neutron diffraction indicate that similar changes in the Li-sublattice occur despite a significant variation in the size of the substituents, suggesting that in the argyrodites, the lithium substructure is most likely influenced by the occurring Li<sup>+</sup>– Li<sup>+</sup>interactions. This work provides further evidence that the energy landscape of ionic conductors can be tailored by inducing local disorder.</p>

scholarly journals A general mechanism of grain growth-Ⅱ: Experimental

2021 ◽  
Author(s):  
Jianfeng Hu ◽  
Junzhan Zhang ◽  
Xianhao Wang ◽  
Jun Luo ◽  
Zhijun Zhang ◽  
...  
Keyword(s):  
Grain Growth ◽  
General Mechanism

scholarly journals Peculiarities of promiscuous l-threonine transaldolases for enantioselective synthesis of β-hydroxy-α-amino acids

2021 ◽  
Author(s):  
Shan Wang ◽  
Hai Deng
Keyword(s):  
Amino Acids ◽  
Organic Molecules ◽  
Stereoselective Synthesis ◽  
Enantioselective Synthesis ◽  
General Mechanism ◽  
Future Developments ◽  
Key Points ◽  
Biomaterial Science ◽  
One Step ◽  
Harsh Conditions

Abstract The introduction of β-hydroxy-α-amino acids (βHAAs) into organic molecules has received considerable attention as these molecules have often found widespread applications in bioorganic chemistry, medicinal chemistry and biomaterial science. Despite innovation of asymmetric synthesis of βHAAs, stereoselective synthesis to control the two chiral centres at Cα and Cβ positions is still challenging, with poor atomic economy and multi protection and deprotection steps. These syntheses are often operated under harsh conditions. Therefore, a biotransformation approach using biocatalysts is needed to selectively introduce these two chiral centres into structurally diverse molecules. Yet, there are few ways that enable one-step synthesis of βHAAs. One is to extend the substrate scope of the existing enzyme inventory. Threonine aldolases have been explored to produce βHAAs. However, the enzymes have poor controlled installation at Cβ position, often resulting in a mixture of diastereoisomers which are difficult to be separated. In this respect, l-threonine transaldolases (LTTAs) offer an excellent potential as the enzymes often provide controlled stereochemistry at Cα and Cβ positions. Another is to mine LTTA homologues and engineer the enzymes using directed evolution with the aim of finding engineered biocatalysts to accept broad substrates with enhanced conversion and stereoselectivity. Here, we review the development of LTTAs that incorporate various aldehyde acceptors to generate structurally diverse βHAAs and highlight areas for future developments. Key points • The general mechanism of the transaldolation reaction catalysed by LTTAs • Recent advances in LTTAs from different biosynthetic pathways • Applications of LTTAs as biocatalysts for production of βHAAs

scholarly journals LncRNA:DNA triplex-forming sites are positioned at specific areas of genome organization and are predictors for Topologically Associated Domains

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Benjamin Soibam ◽  
Ayzhamal Zhamangaraeva
Keyword(s):  
Genome Organization ◽  
Chromatin Organization ◽  
Ctcf Binding ◽  
General Mechanism ◽  
Promoter Regions ◽  
Cellular Processes ◽  
A Genome ◽  
Topologically Associated Domains ◽  
Multiple Cell ◽  
Genomic Regions

Abstract Background Chromosomes are organized into units called topologically associated domains (TADs). TADs dictate regulatory landscapes and other DNA-dependent processes. Even though various factors that contribute to the specification of TADs have been proposed, the mechanism is not fully understood. Understanding the process for specification and maintenance of these units is essential in dissecting cellular processes and disease mechanisms. Results In this study, we report a genome-wide study that considers the idea of long noncoding RNAs (lncRNAs) mediating chromatin organization using lncRNA:DNA triplex-forming sites (TFSs). By analyzing the TFSs of expressed lncRNAs in multiple cell lines, we find that they are enriched in TADs, their boundaries, and loop anchors. However, they are evenly distributed across different regions of a TAD showing no preference for any specific portions within TADs. No relationship is observed between the locations of these TFSs and CTCF binding sites. However, TFSs are located not just in promoter regions but also in intronic, intergenic, and 3’UTR regions. We also show these triplex-forming sites can be used as predictors in machine learning models to discriminate TADs from other genomic regions. Finally, we compile a list of important “TAD-lncRNAs” which are top predictors for TADs identification. Conclusions Our observations advocate the idea that lncRNA:DNA TFSs are positioned at specific areas of the genome organization and are important predictors for TADs. LncRNA:DNA triplex formation most likely is a general mechanism of action exhibited by some lncRNAs, not just for direct gene regulation but also to mediate 3D chromatin organization.

scholarly journals A general mechanism of grain growth ─Ⅰ. Theory

2021 ◽  
Author(s):  
Jianfeng Hu ◽  
Xianhao Wang ◽  
Junzhan Zhang ◽  
Jun Luo ◽  
Zhijun Zhang ◽  
...  
Keyword(s):  
Grain Growth ◽  
General Mechanism
Sign in / Sign up

Export Citation Format

Share Document