Literature DB >> 26677225

Introduction to the Minireview Series on Modern Technologies for In-cell Biochemistry.

Svetlana Lutsenko1.   

Abstract

The last decade has seen enormous progress in the exploration and understanding of the behavior of molecules in their natural cellular environments at increasingly high spatial and temporal resolution. Advances in microscopy and the development of new fluorescent reagents as well as genetic editing techniques have enabled quantitative analysis of protein interactions, intracellular trafficking, metabolic changes, and signaling. Modern biochemistry now faces new and exciting challenges. Can traditionally "in vitro" experiments, e.g. analysis of protein folding and conformational transitions, be done in cells? Can the structure and behavior of endogenous and/or non-tagged recombinant proteins be analyzed and altered within the cell or in cellular compartments? How can molecules and their actions be studied mechanistically in tissues and organs? Is personalized cellular biochemistry a reality? This thematic series summarizes recent studies that illustrate some first steps toward successfully answering these modern biochemical questions. The first minireview focuses on utilization of three-dimensional primary enteroids and organoids for mechanistic studies of intestinal biology with molecular resolution. The second minireview describes application of single chain antibodies (nanobodies) for monitoring and regulating protein dynamics in vitro and in cells. The third minireview highlights advances in using NMR spectroscopy for analysis of protein folding and assembly in cells.
© 2016 by The American Society for Biochemistry and Molecular Biology, Inc.

Keywords:  cell culture; conformational transitions; molecular dynamics; nanobody, protein folding; nuclear magnetic resonance (NMR); organoids; protein conformation; protein dynamics; protein-protein interactions; single-domain antibody (sdAb, nanobody)

Mesh:

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Year:  2015        PMID: 26677225      PMCID: PMC4759157          DOI: 10.1074/jbc.R115.709444

Source DB:  PubMed          Journal:  J Biol Chem        ISSN: 0021-9258            Impact factor:   5.157


  11 in total

Review 1.  Nanobodies as Probes for Protein Dynamics in Vitro and in Cells.

Authors:  Oleg Y Dmitriev; Svetlana Lutsenko; Serge Muyldermans
Journal:  J Biol Chem       Date:  2015-12-16       Impact factor: 5.157

Review 2.  A Unique Tool for Cellular Structural Biology: In-cell NMR.

Authors:  Enrico Luchinat; Lucia Banci
Journal:  J Biol Chem       Date:  2015-12-16       Impact factor: 5.157

3.  Anatomy of F1-ATPase powered rotation.

Authors:  James L Martin; Robert Ishmukhametov; Tassilo Hornung; Zulfiqar Ahmad; Wayne D Frasch
Journal:  Proc Natl Acad Sci U S A       Date:  2014-02-24       Impact factor: 11.205

4.  X-ray structure of the mouse serotonin 5-HT3 receptor.

Authors:  Ghérici Hassaine; Cédric Deluz; Luigino Grasso; Romain Wyss; Menno B Tol; Ruud Hovius; Alexandra Graff; Henning Stahlberg; Takashi Tomizaki; Aline Desmyter; Christophe Moreau; Xiao-Dan Li; Frédéric Poitevin; Horst Vogel; Hugues Nury
Journal:  Nature       Date:  2014-08-03       Impact factor: 49.962

Review 5.  Nanobody-based products as research and diagnostic tools.

Authors:  Thomas De Meyer; Serge Muyldermans; Ann Depicker
Journal:  Trends Biotechnol       Date:  2014-04-01       Impact factor: 19.536

6.  Discovery of enzyme modulators via high-throughput time-resolved FRET in living cells.

Authors:  Simon J Gruber; Razvan L Cornea; Ji Li; Kurt C Peterson; Tory M Schaaf; Gregory D Gillispie; Russell Dahl; Krisztina M Zsebo; Seth L Robia; David D Thomas
Journal:  J Biomol Screen       Date:  2014-02

7.  Single-cell messenger RNA sequencing reveals rare intestinal cell types.

Authors:  Dominic Grün; Anna Lyubimova; Lennart Kester; Kay Wiebrands; Onur Basak; Nobuo Sasaki; Hans Clevers; Alexander van Oudenaarden
Journal:  Nature       Date:  2015-08-19       Impact factor: 49.962

8.  Crystal structure of the proteasomal deubiquitylation module Rpn8-Rpn11.

Authors:  Ganesh Ramnath Pathare; István Nagy; Paweł Śledź; Daniel J Anderson; Han-Jie Zhou; Els Pardon; Jan Steyaert; Friedrich Förster; Andreas Bracher; Wolfgang Baumeister
Journal:  Proc Natl Acad Sci U S A       Date:  2014-02-10       Impact factor: 11.205

Review 9.  Human Enteroids/Colonoids and Intestinal Organoids Functionally Recapitulate Normal Intestinal Physiology and Pathophysiology.

Authors:  Nicholas C Zachos; Olga Kovbasnjuk; Jennifer Foulke-Abel; Julie In; Sarah E Blutt; Hugo R de Jonge; Mary K Estes; Mark Donowitz
Journal:  J Biol Chem       Date:  2015-12-16       Impact factor: 5.486

Review 10.  Single-cell technologies are revolutionizing the approach to rare cells.

Authors:  Valentina Proserpio; Tapio Lönnberg
Journal:  Immunol Cell Biol       Date:  2015-12-01       Impact factor: 5.126

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  2 in total

Review 1.  Drug Discovery via Human-Derived Stem Cell Organoids.

Authors:  Fangkun Liu; Jing Huang; Bo Ning; Zhixiong Liu; Shen Chen; Wei Zhao
Journal:  Front Pharmacol       Date:  2016-09-22       Impact factor: 5.810

Review 2.  CRISPR therapeutic tools for complex genetic disorders and cancer (Review).

Authors:  Stella Baliou; Maria Adamaki; Anthony M Kyriakopoulos; Demetrios A Spandidos; Mihalis Panayiotidis; Ioannis Christodoulou; Vassilis Zoumpourlis
Journal:  Int J Oncol       Date:  2018-06-06       Impact factor: 5.650

  2 in total

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