Literature DB >> 26749445

Conformational Chaperones for Structural Studies of Membrane Proteins Using Antibody Phage Display with Nanodiscs.

Pawel K Dominik1, Marta T Borowska1, Olivier Dalmas1, Sangwoo S Kim1, Eduardo Perozo1, Robert J Keenan1, Anthony A Kossiakoff2.   

Abstract

A major challenge in membrane biophysics is to define the mechanistic linkages between a protein's conformational transitions and its function. We describe a novel approach to stabilize transient functional states of membrane proteins in native-like lipid environments allowing for their structural and biochemical characterization. This is accomplished by combining the power of antibody Fab-based phage display selection with the benefits of embedding membrane protein targets in lipid-filled nanodiscs. In addition to providing a stabilizing lipid environment, nanodiscs afford significant technical advantages over detergent-based formats. This enables the production of a rich pool of high-performance Fab binders that can be used as crystallization chaperones, as fiducial markers for single-particle cryoelectron microscopy, and as probes of different conformational states. Moreover, nanodisc-generated Fabs can be used to identify detergents that best mimic native membrane environments for use in biophysical studies.
Copyright © 2016 Elsevier Ltd. All rights reserved.

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Year:  2015        PMID: 26749445      PMCID: PMC4740257          DOI: 10.1016/j.str.2015.11.014

Source DB:  PubMed          Journal:  Structure        ISSN: 0969-2126            Impact factor:   5.006


  42 in total

1.  Assembly of single bacteriorhodopsin trimers in bilayer nanodiscs.

Authors:  Timothy H Bayburt; Yelena V Grinkova; Stephen G Sligar
Journal:  Arch Biochem Biophys       Date:  2006-03-29       Impact factor: 4.013

2.  Crystal structure of the CorA Mg2+ transporter.

Authors:  Vladimir V Lunin; Elena Dobrovetsky; Galina Khutoreskaya; Rongguang Zhang; Andrzej Joachimiak; Declan A Doyle; Alexey Bochkarev; Michael E Maguire; Aled M Edwards; Christopher M Koth
Journal:  Nature       Date:  2006-04-06       Impact factor: 49.962

3.  X-ray structures of the antigen-binding domains from three variants of humanized anti-p185HER2 antibody 4D5 and comparison with molecular modeling.

Authors:  C Eigenbrot; M Randal; L Presta; P Carter; A A Kossiakoff
Journal:  J Mol Biol       Date:  1993-02-20       Impact factor: 5.469

4.  Crystal structure of a divalent metal ion transporter CorA at 2.9 angstrom resolution.

Authors:  Said Eshaghi; Damian Niegowski; Andreas Kohl; Daniel Martinez Molina; Scott A Lesley; Pär Nordlund
Journal:  Science       Date:  2006-07-21       Impact factor: 47.728

5.  Functional reconstitution of Beta2-adrenergic receptors utilizing self-assembling Nanodisc technology.

Authors:  Andrew J Leitz; Timothy H Bayburt; Alexander N Barnakov; Barry A Springer; Stephen G Sligar
Journal:  Biotechniques       Date:  2006-05       Impact factor: 1.993

6.  A YidC-like Protein in the Archaeal Plasma Membrane.

Authors:  Marta T Borowska; Pawel K Dominik; S Andrei Anghel; Anthony A Kossiakoff; Robert J Keenan
Journal:  Structure       Date:  2015-08-06       Impact factor: 5.006

7.  Synthetic antibodies from a four-amino-acid code: a dominant role for tyrosine in antigen recognition.

Authors:  Frederic A Fellouse; Christian Wiesmann; Sachdev S Sidhu
Journal:  Proc Natl Acad Sci U S A       Date:  2004-08-11       Impact factor: 11.205

8.  Lipid-induced conformational changes of an integral membrane protein: an infrared spectroscopic study of the effects of Triton X-100 treatment on the purple membrane of Halobacterium halobium ET1001.

Authors:  S M Barnett; S Dracheva; R Hendler; I W Levin
Journal:  Biochemistry       Date:  1996-04-09       Impact factor: 3.162

9.  Structural asymmetry in the magnesium channel CorA points to sequential allosteric regulation.

Authors:  Roland Pfoh; Angela Li; Nilmadhab Chakrabarti; Jian Payandeh; Régis Pomès; Emil F Pai
Journal:  Proc Natl Acad Sci U S A       Date:  2012-10-29       Impact factor: 11.205

10.  Phage display selections for affinity reagents to membrane proteins in nanodiscs.

Authors:  Pawel K Dominik; Anthony A Kossiakoff
Journal:  Methods Enzymol       Date:  2015-03-24       Impact factor: 1.600

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  24 in total

1.  Synthetic single domain antibodies for the conformational trapping of membrane proteins.

Authors:  Iwan Zimmermann; Pascal Egloff; Cedric Aj Hutter; Fabian M Arnold; Peter Stohler; Nicolas Bocquet; Melanie N Hug; Sylwia Huber; Martin Siegrist; Lisa Hetemann; Jennifer Gera; Samira Gmür; Peter Spies; Daniel Gygax; Eric R Geertsma; Roger Jp Dawson; Markus A Seeger
Journal:  Elife       Date:  2018-05-24       Impact factor: 8.140

Review 2.  Nanodiscs in Membrane Biochemistry and Biophysics.

Authors:  Ilia G Denisov; Stephen G Sligar
Journal:  Chem Rev       Date:  2017-02-08       Impact factor: 60.622

3.  Structural basis for activation of voltage sensor domains in an ion channel TPC1.

Authors:  Alexander F Kintzer; Evan M Green; Pawel K Dominik; Michael Bridges; Jean-Paul Armache; Dawid Deneka; Sangwoo S Kim; Wayne Hubbell; Anthony A Kossiakoff; Yifan Cheng; Robert M Stroud
Journal:  Proc Natl Acad Sci U S A       Date:  2018-09-06       Impact factor: 11.205

4.  An engineered ultra-high affinity Fab-Protein G pair enables a modular antibody platform with multifunctional capability.

Authors:  Tomasz Slezak; Lucas J Bailey; Mateusz Jaskolowski; Dominik A Nahotko; Ekaterina V Filippova; Elena K Davydova; Anthony A Kossiakoff
Journal:  Protein Sci       Date:  2019-11-01       Impact factor: 6.725

5.  Unidirectional Presentation of Membrane Proteins in Nanoparticle-Supported Liposomes.

Authors:  Wen Chen; Yongfei Cai; Qingshan Fu; Bing Chen; Junling Guo; James J Chou
Journal:  Angew Chem Int Ed Engl       Date:  2019-05-07       Impact factor: 15.336

Review 6.  Nanodiscs for structural and functional studies of membrane proteins.

Authors:  Ilia G Denisov; Stephen G Sligar
Journal:  Nat Struct Mol Biol       Date:  2016-06-07       Impact factor: 15.369

7.  Structures of ABCB4 provide insight into phosphatidylcholine translocation.

Authors:  Kamil Nosol; Rose Bang-Sørensen; Rossitza N Irobalieva; Satchal K Erramilli; Bruno Stieger; Anthony A Kossiakoff; Kaspar P Locher
Journal:  Proc Natl Acad Sci U S A       Date:  2021-08-17       Impact factor: 11.205

Review 8.  Camelid Single-Domain Antibodies for the Development of Potent Diagnosis Platforms.

Authors:  Nairo Brilhante-da-Silva; Rosa Maria de Oliveira Sousa; Andrelisse Arruda; Eliza Lima Dos Santos; Anna Carolina Machado Marinho; Rodrigo Guerino Stabeli; Carla Freire Celedonio Fernandes; Soraya Dos Santos Pereira
Journal:  Mol Diagn Ther       Date:  2021-06-19       Impact factor: 4.074

9.  K29-linked ubiquitin signaling regulates proteotoxic stress response and cell cycle.

Authors:  Yuanyuan Yu; Qingyun Zheng; Satchal K Erramilli; Man Pan; Seongjin Park; Yuan Xie; Jingxian Li; Jingyi Fei; Anthony A Kossiakoff; Lei Liu; Minglei Zhao
Journal:  Nat Chem Biol       Date:  2021-07-08       Impact factor: 15.040

10.  Structural basis of omega-3 fatty acid transport across the blood-brain barrier.

Authors:  Rosemary J Cater; Geok Lin Chua; Satchal K Erramilli; James E Keener; Brendon C Choy; Piotr Tokarz; Cheen Fei Chin; Debra Q Y Quek; Brian Kloss; Joseph G Pepe; Giacomo Parisi; Bernice H Wong; Oliver B Clarke; Michael T Marty; Anthony A Kossiakoff; George Khelashvili; David L Silver; Filippo Mancia
Journal:  Nature       Date:  2021-06-16       Impact factor: 49.962

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