Ep 13: Finally Taking Off

今回は、雑談回です。岡本、本田、松林で、ベイカー研究室訪問、実験機器や研究室のマネジメント、実験医学特集号、MSAの使い方、などについて雑談しました。 曽宮さん回Ep 12: [Interview] Masaharu Somiya (Osaka Univ.) "Doubt the obvious" https://open.spotify.com/episode/25CtRNUN8PJXZPbHZPkaoh Bio-Station 本田出演回 #17 The Era of Protein Design (ゲスト：本田信吾さん/David Bakerラボポスドク) https://open.spotify.com/episode/6vo8P6RADuXln3WNeurAfq Mass photometry https://refeyn.com/about-mass-photometry Negative Stain https://en.wikipedia.org/wiki/Negative_stain OpenAI has created an AI model for longevity science https://www.technologyreview.com/2025/01/17/1110086/openai-has-created-an-ai-model-for-longevity-science/?utm_medium=tr_social&utm_campaign=site_visitor.unpaid.engagement&utm_source=Twitter ASCB Cell Bio 2024 https://www.ascb.org/cellbio2024/ Galvanin is an electric-field sensor for directed cell migration, 2024, BioRxiv https://www.biorxiv.org/content/10.1101/2024.09.23.614580v1 Super Charged GFP https://pubs.acs.org/doi/10.1021/ja071641y Light-Based Juxtacrine Signaling Between Synthetic Cells, 2024, Small Science https://onlinelibrary.wiley.com/doi/full/10.1002/smsc.202400401 Luciferase > LOV domain は届くか？ NanoLuc (furimazine) kcat = 7.88 s-1 > NanoLuc 1分子あたり1分間（iLIDの半減期程度）に 472光子発生 https://www.nature.com/articles/s41467-023-43403-y#Tab1 iLID (FMN)のモル吸光係数を 12000 M-1 cm-1 とすると 4.6 x10^-3 nm^2/分子 NanoLuc と iLID が 5 nm (POPC膜) 離れているとすると、472光子のうち iLID に当たるのは 472 x (4.6 x10^-3) / (4x3.14x5^2) = 6.9 x10^-3 純粋に光として活性化するには2桁ほど低いので、BRET？ 詳しい方いましたら、コメントいただければ幸いです。 LOV domainhttps://en.wikipedia.org/wiki/Light-oxygen-voltage-sensing_domain https://www.optobase.org/switches/ GUV系で、膜の内から外への Luciferase > LOV domainのシグナル伝達を行った別の論文 https://pubs.acs.org/doi/10.1021/acsnano.1c01600 細胞内での Luciferase > LOV domain シグナル伝達Luciferase-LOV BRET enables versatile and specific transcriptional readout of cellular protein-protein interactions, 2019, eLife https://elifesciences.org/articles/43826 細胞間での Luciferase > Channel Rhodopsin シグナル伝達Neural engineering with photons as synaptic transmitters, 2023, Nat. Methods. https://www.nature.com/articles/s41592-023-01836-9 Luciferase coupled photocatalysis https://doi.org/10.1038/s41467-018-05916-9 シアトル (SEA)と東京 (NRT)間の新しい便 https://news.alaskaair.com/destinations/alaska-air-group-seattle-nonstop-routes-hawaiian-airlines-to-tokyo-and-seoul/ 実験医学別冊「AlphaFold時代の構造バイオインフォマティクス実践ガイド」 https://www.yodosha.co.jp/yodobook/book/9784758122764/ Dr. Nathaniel (Nate) R. Bennett https://x.com/naterbennett0 Deep learning improves protein binder design tenfold https://www.bakerlab.org/2023/05/08/deep-learning-improves-protein-binder-design-tenfold/ Improving de novo protein binder design with deep learning, 2023, Nat Commun. https://www.nature.com/articles/s41467-023-38328-5