keyword
https://read.qxmd.com/read/37975572/what-alphafold-tells-us-about-cohesin-s-retention-on-and-release-from-chromosomes
#21
JOURNAL ARTICLE
Kim A Nasmyth, Byung-Gil Lee, Maurici Brunet Roig, Jan Löwe
Cohesin is a trimeric complex containing a pair of SMC proteins (Smc1 and Smc3) whose ATPase domains at the end of long coiled coils (CC) are interconnected by Scc1. During interphase, it organizes chromosomal DNA topology by extruding loops in a manner dependent on Scc1's association with two large hook-shaped proteins called SA (yeast: Scc3) and Nipbl (Scc2). The latter's replacement by Pds5 recruits Wapl, which induces release from chromatin via a process requiring dissociation of Scc1's N-terminal domain (NTD) from Smc3...
November 17, 2023: ELife
https://read.qxmd.com/read/37862289/octogenarian-patients-and-laser-assisted-lead-extraction-should-we-put-a-limit
#22
JOURNAL ARTICLE
Sameer Al-Maisary, Gabriele Romano, Matthias Karck, Raffaele De Simone, Jamila Kremer, Rawa Arif
BACKGROUND: Transvenous laser lead extraction (TLE) for cardiac implantable electric devices (CIED) is a challenging procedure especially if performed in octogenarians. In this study we evaluated the safety and efficacy of transvenous laser lead extraction in elderly patients. METHODS: This is a retrospective study of octogenarian patients who underwent laser-assisted lead extraction (LLE) (GlideLight laser sheath, Philips, San Diego, USA). 270 Consecutive patients were included...
2023: PloS One
https://read.qxmd.com/read/37844228/ciliary-localization-of-a-light-activated-neuronal-gpcr-shapes-behavior
#23
JOURNAL ARTICLE
Amy M Winans, Drew Friedmann, Cherise Stanley, Tong Xiao, Tsung-Li Liu, Christopher J Chang, Ehud Y Isacoff
Many neurons in the central nervous system produce a single primary cilium that serves as a specialized signaling organelle. Several neuromodulatory G-protein-coupled receptors (GPCRs) localize to primary cilia in neurons, although it is not understood how GPCR signaling from the cilium impacts circuit function and behavior. We find that the vertebrate ancient long opsin A (VALopA), a Gi -coupled GPCR extraretinal opsin, targets to cilia of zebrafish spinal neurons. In the developing 1-d-old zebrafish, brief light activation of VALopA in neurons of the central pattern generator circuit for locomotion leads to sustained inhibition of coiling, the earliest form of locomotion...
October 24, 2023: Proceedings of the National Academy of Sciences of the United States of America
https://read.qxmd.com/read/37803828/the-role-of-flow-in-the-self-assembly-of-dragline-spider-silk-proteins
#24
JOURNAL ARTICLE
Ana M Herrera-Rodríguez, Anil Kumar Dasanna, Csaba Daday, Eduardo R Cruz-Chú, Camilo Aponte-Santamaría, Ulrich S Schwarz, Frauke Gräter
Hydrodynamic flow in the spider duct induces conformational changes in dragline spider silk proteins (spidroins) and drives their assembly, but the underlying physical mechanisms are still elusive. Here we address this challenging multiscale problem with a complementary strategy of atomistic and coarse-grained Molecular Dynamics (MD) simulations with uniform flow. The conformational changes at the molecular level were analyzed for single-tethered spider silk peptides. Uniform flow leads to coiled-to-stretch transitions and pushes alanine residues into β-sheet and Poly-Proline II (PPII) conformations...
October 5, 2023: Biophysical Journal
https://read.qxmd.com/read/37790447/construction-and-reconfiguration-of-dynamic-dna-origami-assemblies-with-coiled-coil-patches-and-patterns
#25
T Teng, J Bernal-Chanchavac, N Stephanopoulos, C E Castro
DNA origami nanodevices achieve programmable structure and tunable mechanical and dynamic properties by leveraging the sequence specific interactions of nucleic acids. Previous advances have also established DNA origami as a useful building block to make well-defined micron-scale structures through hierarchical self-assembly, but these efforts have largely leveraged the structural features of DNA origami. The tunable dynamic and mechanical properties also provide an opportunity to make assemblies with adaptive structure and properties...
September 24, 2023: bioRxiv
https://read.qxmd.com/read/37789845/first-cut-design-of-a-benchtop-cryogen-free-23-5-t-25-mm-magnet-for-1-ghz-microcoil-nmr
#26
JOURNAL ARTICLE
Dongkeun Park, Fangliang Dong, Wooseung Lee, Juan Bascuñán, Yukikazu Iwasa
As a preliminary work, we have completed a 12.5-mm-cold-bore high-temperature superconducting (HTS) REBCO magnet prototype and successfully operated it up to 25 T at 10 K cooled by a cryocooler only, without liquid helium. In this paper we present the first-cut design of a cryogen-free all-REBCO 23.5-T/25-mm-warm-bore magnet having a high homogeneity of <0.1 ppm over a 1-cm diameter of spherical volume for a benchtop 1-GHz microcoil NMR spectroscopy. We also investigate a shielding design to reduce a 5-gauss fringe field radius to ≤1...
August 2023: IEEE Transactions on Applied Superconductivity
https://read.qxmd.com/read/37558766/a-novel-coiled-coil-domain-containing-related-gene-signature-for-predicting-prognosis-and-treatment-effect-of-breast-cancer
#27
JOURNAL ARTICLE
Yufei Wang, Yanmei Wang, Jia Zhou, Pingting Ying, Zhuo Wang, Yan Wu, Minyan Hao, Shuying Qiu, Hongchuan Jin, Xian Wang
PURPOSE: Breast cancer (BRCA) is a prevalent tumor worldwide. The association between the coiled-coil domain-containing (CCDC) protein family and different tumors has been established. However, the prognostic significance of this protein family in breast cancer remains uncertain. METHODS: Gene expression and clinical data were obtained from the TCGA, METABRIC, and GEO databases. Prognosis genes were identified using univariate Cox and LASSO Cox regression, leading to the establishment of a prognostic signature...
August 9, 2023: Journal of Cancer Research and Clinical Oncology
https://read.qxmd.com/read/37515909/flexible-processing-technology-of-coix-seed-prolamins-by-combined-heat-ultrasound-effects-on-their-enzymatic-hydrolysis-characteristics-and-the-hypoglycemic-activities-of-derived-peptides
#28
JOURNAL ARTICLE
Zhiming Li, Shu Zhang, Lu Bai, Huacheng Tang, Guifang Zhang, Jiayu Zhang, Weihong Meng, Dongjie Zhang
The self-assembled structures of coix seeds affected the enzymatic efficiency and doesn't facilitate the release of more active peptides. The influence of heating combined with ultrasound pretreatment (HT + US) on the structure, enzymatic properties and hydrolysates (CHPs) of coix seed prolamin was investigated. Results showed that the structural of coix seed prolamins has changed after HT + US, including increased surface hydrophobicity, reduced α-helix and random coil content, and a decrease in particle size...
July 10, 2023: Ultrasonics Sonochemistry
https://read.qxmd.com/read/37402740/single-cohesin-molecules-generate-force-by-two-distinct-mechanisms
#29
JOURNAL ARTICLE
Georgii Pobegalov, Lee-Ya Chu, Jan-Michael Peters, Maxim I Molodtsov
Spatial organization of DNA is facilitated by cohesin protein complexes that move on DNA and extrude DNA loops. How cohesin works mechanistically as a molecular machine is poorly understood. Here, we measure mechanical forces generated by conformational changes in single cohesin molecules. We show that bending of SMC coiled coils is driven by random thermal fluctuations leading to a ~32 nm head-hinge displacement that resists forces up to 1 pN; ATPase head engagement occurs in a single step of ~10 nm and is driven by an ATP dependent head-head movement, resisting forces up to 15 pN...
July 4, 2023: Nature Communications
https://read.qxmd.com/read/37352134/burst-by-burst-measurement-of-rotational-diffusion-at-nanosecond-resolution-reveals-hot-brownian-motion-and-single-chain-binding
#30
JOURNAL ARTICLE
Nasrin Asgari, Martin Dieter Baaske, Michel Orrit
We record dark-field scattering bursts of individual gold nanorods, 52 × 15 nm2 in average size, freely diffusing in water suspension. We deduce their Brownian rotational diffusion constant from autocorrelation functions on a single-event basis. Due to spectral selection by the plasmonic resonance with the excitation laser, the distribution of rotational diffusion constants is much narrower than expected from the size distribution measured by TEM. As rotational diffusion depends on particle hydrodynamic volume, viscosity, and temperature, it can sense those parameters at the single-particle level...
July 11, 2023: ACS Nano
https://read.qxmd.com/read/37332109/intra-cranial-aneurysm-treatment-with-contour-or-web-a-single-center-comparison-of-intervention-times-and-learning-curves
#31
JOURNAL ARTICLE
Friederike Gärtner, Tristan Klintz, Sönke Peters, Fernando Bueno Neves, Karim Mostafa, Justus Mahnke, Johannes Hensler, Charlotte Flüh, Naomi Larsen, Olav Jansen, Fritz Wodarg
BACKGROUND AND PURPOSE: Treating aneurysms with intra-saccular flow disruption is a feasible alternative to coil-embolization. Besides the established WEB device, the novel Contour Neurovascular System has emerged as a potentially easier alternative regarding sizing and deployment. We report the learning curve experienced at our center from the first 48 patients treated with Contour and compared it with 48 consecutive WEB cases. METHODS: Both groups were compared concerning intervention time, sizing failures leading to device changes and radiation dose...
June 18, 2023: Interventional Neuroradiology
https://read.qxmd.com/read/37319269/development-of-adjustable-variable-stiffness-restrainer-for-bridge-subjected-to-seismic-excitation
#32
JOURNAL ARTICLE
Mustafa Kareem Hamzah, Farzad Hejazi
This paper presents a numerical and experimental assessment of a developed adjustable variable stiffness restrainer (AVSR) utilized for short span bridges. This restrainer has the ability to demonstrate multi stiffness capacity in different stages of bridge's superstructure movement to mitigate the severe damage of bridge due to an earthquake. The multi-level stiffness behavior of developed AVSR is achieved by using multiple mechanical springs with different lengths and placed in parallel in proposed design...
2023: PloS One
https://read.qxmd.com/read/37318077/transvenous-lead-extraction-factors-affecting-procedural-difficulty
#33
JOURNAL ARTICLE
Ahmed Abdelazeem, Ashraf Ahmed, Antonio Curnis, Gianmarco Arabia, Manuel Cerini, Mohamed Aboelhassan, Francesca Salghetti, Antonino Milidoni, Mostafa Nawar, Gehan Magdy
BACKGROUND: A complex transvenous lead extraction (TLE) procedure could be associated with lower success and higher complication rates in inexperienced hands. In this study, we aim to assess the factors that determine procedural difficulty in TLE. METHODS: We retrospectively studied 200 consecutive patients undergoing TLE in a single referral centre from June 2020 to December 2021. Lead extraction difficulty was assessed by the success of simple manual traction with or without a locking stylet, the need for advanced extraction tools and the number of tools required to extract the lead...
June 15, 2023: Acta Cardiologica
https://read.qxmd.com/read/37264920/efficacy-and-safety-of-adjunctive-and-primary-use-of-the-tightrail-mechanical-cutting-sheath-for-lead-extraction
#34
JOURNAL ARTICLE
James R Sampognaro, Maham Karatela, Robert K Lewis, Eric Black-Maier, Sean D Pokorney, Donald D Hegland, Jonathan P Piccini
BACKGROUND: Rotational cutting tools are increasingly used in transvenous lead extraction. There are limited data on their safety and efficacy, particularly when used adjunctively for stalled progression. The aim of this study was to evaluate the utilization, safety, and effectiveness of mechanical rotational cutting tools for transvenous lead extraction. METHODS: Patients undergoing transvenous lead extraction at a single tertiary center (April 2015 to January 2021, n=586) were included in this retrospective analysis...
June 2023: Circulation. Arrhythmia and Electrophysiology
https://read.qxmd.com/read/37208662/effect-of-accessory-hepatic-artery-reconstruction-on-prognosis-in-orthotopic-liver-transplantation-a-single-center-experience
#35
JOURNAL ARTICLE
Rui Zhang, He-Zhao Zhang, Tian Han, Zhi-Gang Wei, Zhi-Yong Shi, Jun Xu
BACKGROUND: In orthotopic liver transplantation (OLT), preserving an aberrant hepatic artery (AHA) can increase the number of arterial anastomoses and may lead to arterial-related complications. AHA includes accessory hepatic artery and replaced hepatic artery. Herein, the purpose of our research is to evaluate the requirement for accessory anastomosis in OLT. METHODS: We retrospectively reviewed a total of 95 patients who underwent OLT in our hospital between April 2020 and December 2022...
May 19, 2023: BMC Surgery
https://read.qxmd.com/read/37140932/a-multi-engine-marangoni-rotor-with-controlled-motion-for-mini-generator-application
#36
JOURNAL ARTICLE
Guoxin Lu, Guiqiang Zhu, Benwei Peng, Rongzhuang Zhao, Feng Shi, Mengjiao Cheng
Marangoni rotors are smart devices that are capable of self-propulsive motions based on the Marangoni effect, namely interfacial flows caused by a gradient of surface tension. Owing to the features of untethered motions and coupled complexity with fluid, these Marangoni devices are attractive for both theoretical study and applications in biomimicking, cargo delivery, energy conversion, etc. However, the controllability of Marangoni motions dependent on concentration gradients remains to be improved, including the motion lifetime, direction, and trajectories...
May 4, 2023: ACS Applied Materials & Interfaces
https://read.qxmd.com/read/37036170/plant-defensin-mtdef4-derived-antifungal-peptide-with-multiple-modes-of-action-and-potential-as-a-bio-inspired-fungicide
#37
JOURNAL ARTICLE
Meenakshi Tetorya, Hui Li, Arnaud Thierry Djami-Tchatchou, Garry W Buchko, Kirk J Czymmek, Dilip M Shah
Chemical fungicides have been instrumental in protecting crops from fungal diseases. However, increasing fungal resistance to many of the single-site chemical fungicides calls for the development of new antifungal agents with novel modes of action (MoA). The sequence-divergent cysteine-rich antifungal defensins with multisite MoA are promising starting templates for design of novel peptide-based fungicides. Here, we experimentally tested such a set of 17-amino-acid peptides containing the γ-core motif of the antifungal plant defensin MtDef4...
April 10, 2023: Molecular Plant Pathology
https://read.qxmd.com/read/37003732/machine-learning-of-an-implicit-solvent-for-dynamic-monte-carlo-simulations
#38
JOURNAL ARTICLE
Ankush Checkervarty, Jens-Uwe Sommer, Marco Werner
The Bond Fluctuation Model (BFM) is a highly efficient and versatile method for simulating polymers, membranes, and soft matter. Due to its coarse-grained nature, the BFM is employed to understand the universal properties of polymers. Solvent effects are often mediated by explicit solvent particles, while implicit solvent models have had limited use as they may lead to frozen states and, thus, ergodicity-related problems. In simulation setups, such as coagulated multiple homopolymers chains, explicit solvent models are computationally expensive because the region of interest can be localized in a small space compared to the dimension of the periodic box...
March 28, 2023: Journal of Chemical Physics
https://read.qxmd.com/read/36952491/amino-acid-substitutions-in-human-growth-hormone-affect-secondary-structure-and-receptor-binding
#39
JOURNAL ARTICLE
Andrei Rajkovic, Sandesh Kanchugal, Eldar Abdurakhmanov, Rebecca Howard, Sebastian Wärmländer, Joseph Erwin, Hugo A Barrera Saldaña, Astrid Gräslund, Helena Danielson, Samuel Coulbourn Flores
The interaction between human Growth Hormone (hGH) and hGH Receptor (hGHR) has basic relevance to cancer and growth disorders, and hGH is the scaffold for Pegvisomant, an anti-acromegaly therapeutic. For the latter reason, hGH has been extensively engineered by early workers to improve binding and other properties. We are particularly interested in E174 which belongs to the hGH zinc-binding triad; the substitution E174A is known to significantly increase binding, but to now no explanation has been offered. We generated this and several computationally-selected single-residue substitutions at the hGHR-binding site of hGH...
2023: PloS One
https://read.qxmd.com/read/36897940/molecular-origin-of-the-two-step-mechanism-of-gellan-aggregation
#40
JOURNAL ARTICLE
Letizia Tavagnacco, Ester Chiessi, Leonardo Severini, Silvia Franco, Elena Buratti, Angela Capocefalo, Francesco Brasili, Adriano Mosca Conte, Mauro Missori, Roberta Angelini, Simona Sennato, Claudia Mazzuca, Emanuela Zaccarelli
Among hydrocolloids, gellan is one of the most studied polysaccharides due to its ability to form mechanically stable gels. Despite its long-standing use, the gellan aggregation mechanism is still not understood because of the lack of atomistic information. Here, we fill this gap by developing a new gellan force field. Our simulations offer the first microscopic overview of gellan aggregation, detecting the coil to single-helix transition at dilute conditions and the formation of higher-order aggregates at high concentration through a two-step process: first, the formation of double helices and then their assembly into superstructures...
March 10, 2023: Science Advances
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