Literature DB >> 26677230

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

Oleg Y Dmitriev1, Svetlana Lutsenko2, Serge Muyldermans3.   

Abstract

Nanobodies are the recombinant antigen-recognizing domains of the minimalistic heavy chain-only antibodies produced by camels and llamas. Nanobodies can be easily generated, effectively optimized, and variously derivatized with standard molecular biology protocols. These properties have triggered the recent explosion in the nanobody use in basic and clinical research. This review focuses on the emerging use of nanobodies for understanding and monitoring protein dynamics on the scales ranging from isolated protein domains to live cells, from nanoseconds to hours. The small size and high solubility make nanobodies uniquely suited for studying protein dynamics by NMR. The ability to produce conformation-sensitive nanobodies in cells enables studies that link structural dynamics of a target protein to its cellular behavior. The link between in vitro and in-cell dynamics, afforded by nanobodies, brings the analysis of such important events as receptor signaling, membrane protein trafficking, and protein interactions to the next level of resolution.
© 2016 by The American Society for Biochemistry and Molecular Biology, Inc.

Entities:  

Keywords:  X-ray crystallography; nanobody; nuclear magnetic resonance (NMR); protein domain; protein dynamic; protein dynamics; protein engineering; protein structure; single-domain antibody (sdAb, nanobody)

Mesh:

Substances:

Year:  2015        PMID: 26677230      PMCID: PMC4759159          DOI: 10.1074/jbc.R115.679811

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


  83 in total

Review 1.  Anticalins small engineered binding proteins based on the lipocalin scaffold.

Authors:  Michaela Gebauer; Arne Skerra
Journal:  Methods Enzymol       Date:  2012       Impact factor: 1.600

2.  Target-binding proteins based on the 10th human fibronectin type III domain (¹⁰Fn3).

Authors:  Shohei Koide; Akiko Koide; Daša Lipovšek
Journal:  Methods Enzymol       Date:  2012       Impact factor: 1.600

3.  Fluorescent fusion protein knockout mediated by anti-GFP nanobody.

Authors:  Emmanuel Caussinus; Oguz Kanca; Markus Affolter
Journal:  Nat Struct Mol Biol       Date:  2011-12-11       Impact factor: 15.369

4.  Rapid selection of high-affinity binders using ribosome display.

Authors:  Birgit Dreier; Andreas Plückthun
Journal:  Methods Mol Biol       Date:  2012

5.  Structure and properties of a complex of α-synuclein and a single-domain camelid antibody.

Authors:  Erwin J De Genst; Tim Guilliams; Joke Wellens; Elizabeth M O'Day; Christopher A Waudby; Sarah Meehan; Mireille Dumoulin; Shang-Te Danny Hsu; Nunilo Cremades; Koen H G Verschueren; Els Pardon; Lode Wyns; Jan Steyaert; John Christodoulou; Christopher M Dobson
Journal:  J Mol Biol       Date:  2010-07-08       Impact factor: 5.469

6.  Crystal structure of a copper-transporting PIB-type ATPase.

Authors:  Pontus Gourdon; Xiang-Yu Liu; Tina Skjørringe; J Preben Morth; Lisbeth Birk Møller; Bjørn Panyella Pedersen; Poul Nissen
Journal:  Nature       Date:  2011-06-29       Impact factor: 49.962

7.  Nanobodies targeting mouse/human VCAM1 for the nuclear imaging of atherosclerotic lesions.

Authors:  Alexis Broisat; Sophie Hernot; Jakub Toczek; Jens De Vos; Laurent M Riou; Sandrine Martin; Mitra Ahmadi; Nicole Thielens; Ulrich Wernery; Vicky Caveliers; Serge Muyldermans; Tony Lahoutte; Daniel Fagret; Catherine Ghezzi; Nick Devoogdt
Journal:  Circ Res       Date:  2012-03-30       Impact factor: 17.367

8.  Structure of a nanobody-stabilized active state of the β(2) adrenoceptor.

Authors:  Søren G F Rasmussen; Hee-Jung Choi; Juan Jose Fung; Els Pardon; Paola Casarosa; Pil Seok Chae; Brian T Devree; Daniel M Rosenbaum; Foon Sun Thian; Tong Sun Kobilka; Andreas Schnapp; Ingo Konetzki; Roger K Sunahara; Samuel H Gellman; Alexander Pautsch; Jan Steyaert; William I Weis; Brian K Kobilka
Journal:  Nature       Date:  2011-01-13       Impact factor: 49.962

9.  Crystal structure of the β2 adrenergic receptor-Gs protein complex.

Authors:  Søren G F Rasmussen; Brian T DeVree; Yaozhong Zou; Andrew C Kruse; Ka Young Chung; Tong Sun Kobilka; Foon Sun Thian; Pil Seok Chae; Els Pardon; Diane Calinski; Jesper M Mathiesen; Syed T A Shah; Joseph A Lyons; Martin Caffrey; Samuel H Gellman; Jan Steyaert; Georgios Skiniotis; William I Weis; Roger K Sunahara; Brian K Kobilka
Journal:  Nature       Date:  2011-07-19       Impact factor: 49.962

10.  Crystal structure of a heterodimer of editosome interaction proteins in complex with two copies of a cross-reacting nanobody.

Authors:  Young-Jun Park; Els Pardon; Meiting Wu; Jan Steyaert; Wim G J Hol
Journal:  Nucleic Acids Res       Date:  2011-10-27       Impact factor: 16.971

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  36 in total

Review 1.  Introduction to the Minireview Series on Modern Technologies for In-cell Biochemistry.

Authors:  Svetlana Lutsenko
Journal:  J Biol Chem       Date:  2015-12-16       Impact factor: 5.157

Review 2.  Live-cell imaging of cell signaling using genetically encoded fluorescent reporters.

Authors:  Qiang Ni; Sohum Mehta; Jin Zhang
Journal:  FEBS J       Date:  2017-07-06       Impact factor: 5.542

3.  Intracellular Delivery of Nanobodies for Imaging of Target Proteins in Live Cells.

Authors:  Ruth Röder; Jonas Helma; Tobias Preiß; Joachim O Rädler; Heinrich Leonhardt; Ernst Wagner
Journal:  Pharm Res       Date:  2016-10-31       Impact factor: 4.200

Review 4.  Single-molecule labeling for studying trafficking of renal transporters.

Authors:  Ankita Bachhawat Jaykumar; Paulo S Caceres; Pablo A Ortiz
Journal:  Am J Physiol Renal Physiol       Date:  2018-07-25

5.  Astatine-211 labeled anti-HER2 5F7 single domain antibody fragment conjugates: radiolabeling and preliminary evaluation.

Authors:  Jaeyeon Choi; Ganesan Vaidyanathan; Eftychia Koumarianou; Choong Mo Kang; Michael R Zalutsky
Journal:  Nucl Med Biol       Date:  2017-09-19       Impact factor: 2.408

6.  A single-domain bispecific antibody targeting CD1d and the NKT T-cell receptor induces a potent antitumor response.

Authors:  Roeland Lameris; Adam Shahine; Daniel G Pellicci; Adam P Uldrich; Stephanie Gras; Jérôme Le Nours; Richard W J Groen; Jana Vree; Scott J J Reddiex; Sergio M Quiñones-Parra; Stewart K Richardson; Amy R Howell; Sonja Zweegman; Dale I Godfrey; Tanja D de Gruijl; Jamie Rossjohn; Hans J van der Vliet
Journal:  Nat Cancer       Date:  2020-09-14

7.  Engineering a Proximity-Directed O-GlcNAc Transferase for Selective Protein O-GlcNAcylation in Cells.

Authors:  Daniel H Ramirez; Chanat Aonbangkhen; Hung-Yi Wu; Jeffrey A Naftaly; Stephanie Tang; Timothy R O'Meara; Christina M Woo
Journal:  ACS Chem Biol       Date:  2020-03-02       Impact factor: 5.100

Review 8.  Imaging cellular responses to antigen tagged DNA damage.

Authors:  Marina A Bellani; Jing Huang; Manikandan Paramasivam; Durga Pokharel; Julia Gichimu; Jing Zhang; Michael M Seidman
Journal:  DNA Repair (Amst)       Date:  2018-08-23

Review 9.  Nanobody-derived nanobiotechnology tool kits for diverse biomedical and biotechnology applications.

Authors:  Yongzhong Wang; Zhen Fan; Lei Shao; Xiaowei Kong; Xianjuan Hou; Dongrui Tian; Ying Sun; Yazhong Xiao; Li Yu
Journal:  Int J Nanomedicine       Date:  2016-07-21

Review 10.  The six metal binding domains in human copper transporter, ATP7B: molecular biophysics and disease-causing mutations.

Authors:  Candan Ariöz; Yaozong Li; Pernilla Wittung-Stafshede
Journal:  Biometals       Date:  2017-10-23       Impact factor: 2.949

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