Literature DB >> 17521566

The neurobiologist's guide to structural biology: a primer on why macromolecular structure matters and how to evaluate structural data.

Daniel L Minor1.   

Abstract

Structural biology now plays a prominent role in addressing questions central to understanding how excitable cells function. Although interest in the insights gained from the definition and dissection of macromolecular anatomy is high, many neurobiologists remain unfamiliar with the methods employed. This primer aims to help neurobiologists understand approaches for probing macromolecular structure and where the limits and challenges remain. Using examples of macromolecules with neurobiological importance, the review covers X-ray crystallography, electron microscopy (EM), small-angle X-ray scattering (SAXS), and nuclear magnetic resonance (NMR) and biophysical methods with which these approaches are often paired: isothermal titration calorimetry (ITC), equilibrium analytical ultracentifugation, and molecular dynamics (MD).

Mesh:

Year:  2007        PMID: 17521566      PMCID: PMC3011226          DOI: 10.1016/j.neuron.2007.04.026

Source DB:  PubMed          Journal:  Neuron        ISSN: 0896-6273            Impact factor:   17.173


  151 in total

1.  Structure of the gating domain of a Ca2+-activated K+ channel complexed with Ca2+/calmodulin.

Authors:  M A Schumacher; A F Rivard; H P Bächinger; J P Adelman
Journal:  Nature       Date:  2001-04-26       Impact factor: 49.962

2.  Structural views of the ligand-binding cores of a metabotropic glutamate receptor complexed with an antagonist and both glutamate and Gd3+.

Authors:  Daisuke Tsuchiya; Naoki Kunishima; Narutoshi Kamiya; Hisato Jingami; Kosuke Morikawa
Journal:  Proc Natl Acad Sci U S A       Date:  2002-02-26       Impact factor: 11.205

3.  Is it jolly SAD?

Authors:  Eleanor Dodson
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2003-10-23

Review 4.  Molecular dynamics simulations of biomolecules.

Authors:  Martin Karplus; J Andrew McCammon
Journal:  Nat Struct Biol       Date:  2002-09

5.  Crystal structure of nicotinic acetylcholine receptor homolog AChBP in complex with an alpha-conotoxin PnIA variant.

Authors:  Patrick H N Celie; Igor E Kasheverov; Dmitry Y Mordvintsev; Ronald C Hogg; Pim van Nierop; René van Elk; Sarah E van Rossum-Fikkert; Maxim N Zhmak; Daniel Bertrand; Victor Tsetlin; Titia K Sixma; August B Smit
Journal:  Nat Struct Mol Biol       Date:  2005-06-12       Impact factor: 15.369

Review 6.  Cryocooling and radiation damage in macromolecular crystallography.

Authors:  Elspeth F Garman; Robin Leslie Owen
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2005-12-14

7.  Structural basis for modulation of Kv4 K+ channels by auxiliary KChIP subunits.

Authors:  Huayi Wang; Yan Yan; Qun Liu; Yanhua Huang; Yue Shen; Linjie Chen; Yi Chen; Qiuyue Yang; Quan Hao; KeWei Wang; Jijie Chai
Journal:  Nat Neurosci       Date:  2006-12-24       Impact factor: 24.884

8.  Crystal structures of the GluR5 and GluR6 ligand binding cores: molecular mechanisms underlying kainate receptor selectivity.

Authors:  Mark L Mayer
Journal:  Neuron       Date:  2005-02-17       Impact factor: 17.173

Review 9.  Heterologous protein production using the Pichia pastoris expression system.

Authors:  Sue Macauley-Patrick; Mariana L Fazenda; Brian McNeil; Linda M Harvey
Journal:  Yeast       Date:  2005-03       Impact factor: 3.239

Review 10.  Milestones in electron crystallography.

Authors:  Ludovic Renault; Hui-Ting Chou; Po-Lin Chiu; Rena M Hill; Xiangyan Zeng; Bryant Gipson; Zi Yan Zhang; Anchi Cheng; Vinzenz Unger; Henning Stahlberg
Journal:  J Comput Aided Mol Des       Date:  2006-11-11       Impact factor: 3.686

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  24 in total

1.  Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures.

Authors:  Mark Berjanskii; Jianjun Zhou; Yongjie Liang; Guohui Lin; David S Wishart
Journal:  J Biomol NMR       Date:  2012-06-08       Impact factor: 2.835

2.  Multiple C-terminal tail Ca(2+)/CaMs regulate Ca(V)1.2 function but do not mediate channel dimerization.

Authors:  Eun Young Kim; Christine H Rumpf; Filip Van Petegem; Ryan J Arant; Felix Findeisen; Elizabeth S Cooley; Ehud Y Isacoff; Daniel L Minor
Journal:  EMBO J       Date:  2010-10-15       Impact factor: 11.598

Review 3.  Bacterial voltage-gated sodium channels (BacNa(V)s) from the soil, sea, and salt lakes enlighten molecular mechanisms of electrical signaling and pharmacology in the brain and heart.

Authors:  Jian Payandeh; Daniel L Minor
Journal:  J Mol Biol       Date:  2014-08-23       Impact factor: 5.469

4.  Structural dynamics of an isolated voltage-sensor domain in a lipid bilayer.

Authors:  Sudha Chakrapani; Luis G Cuello; D Marien Cortes; Eduardo Perozo
Journal:  Structure       Date:  2008-03       Impact factor: 5.006

Review 5.  TRP channels entering the structural era.

Authors:  Rachelle Gaudet
Journal:  J Physiol       Date:  2008-06-05       Impact factor: 5.182

Review 6.  A primer on ankyrin repeat function in TRP channels and beyond.

Authors:  Rachelle Gaudet
Journal:  Mol Biosyst       Date:  2008-03-26

7.  Insights into the molecular foundations of electrical excitation.

Authors:  Rachelle Gaudet; Benoit Roux; Daniel L Minor
Journal:  J Mol Biol       Date:  2015-01-16       Impact factor: 5.469

Review 8.  Searching for interesting channels: pairing selection and molecular evolution methods to study ion channel structure and function.

Authors:  Daniel L Minor
Journal:  Mol Biosyst       Date:  2009-06-19

Review 9.  Structural biology of TRP channels.

Authors:  Ute A Hellmich; Rachelle Gaudet
Journal:  Handb Exp Pharmacol       Date:  2014

Review 10.  Divide and conquer: high resolution structural information on TRP channel fragments.

Authors:  Rachelle Gaudet
Journal:  J Gen Physiol       Date:  2009-03       Impact factor: 4.086

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