scholarly journals Advances in integrative structural biology: Towards understanding protein complexes in their cellular context

2021 ◽  
Vol 19 ◽  
pp. 214-225
Author(s):  
Samantha J. Ziegler ◽  
Sam J.B. Mallinson ◽  
Peter C. St. John ◽  
Yannick J. Bomble
Keyword(s):  
Structural Biology ◽  
Protein Complexes ◽  
Cellular Context ◽  
Integrative Structural Biology

scholarly journals Mapping Cellular Microenvironments: Proximity Labeling and Complexome Profiling (Seventh Symposium of the Göttingen Proteomics Forum)

Cells ◽  
2019 ◽  
Vol 8 (10) ◽  
pp. 1192 ◽  
Author(s):  
Oliver Valerius ◽  
Abdul R. Asif ◽  
Tim Beißbarth ◽  
Rainer Bohrer ◽  
Hassan Dihazi ◽  
...  
Keyword(s):  
Structural Biology ◽  
Protein Complexes ◽  
Biological Functions ◽  
New Developments ◽  
Cellular Context ◽  
Cellular Microenvironments ◽  
Biology Research ◽  
Significant Attention ◽  
Shed Light ◽  
Simple Interaction

Mass spectrometry-based proteomics methods are finding increasing use in structural biology research. Beyond simple interaction networks, information about stable protein-protein complexes or spatially proximal proteins helps to elucidate the biological functions of proteins in a wider cellular context. To shed light on new developments in this field, the Göttingen Proteomics Forum organized a one-day symposium focused on complexome profiling and proximity labeling, two emerging technologies that are gaining significant attention in biomolecular research. The symposium was held in Göttingen, Germany on 23 May, 2019, as part of a series of regular symposia organized by the Göttingen Proteomics Forum.

scholarly journals Integrative Structural Biology

Science ◽  
2013 ◽  
Vol 339 (6122) ◽  
pp. 913-915 ◽  
Author(s):  
A. B. Ward ◽  
A. Sali ◽  
I. A. Wilson
Keyword(s):  
Structural Biology ◽  
Integrative Structural Biology

Molecular Biology for Structural Biology

1999 ◽  
Author(s):  
P. F. Berne ◽  
S. Doublié
Keyword(s):  
Molecular Biology ◽  
Recombinant Protein ◽  
Structural Biology ◽  
Protein Complexes ◽  
Recombinant Expression ◽  
Expression System ◽  
Structural Data ◽  
Natural Source ◽  
Native Form ◽  
Number Of Publications

The number of published 3D structures has increased exponentially in the last decade and the resulting mass of structural data has contributed significantly to the understanding of mechanisms underlying the biology of living cells. However, these mechanisms are so complex that structural biologists face still greater challenges, such as the study of higher-order functional complexes. As an example, we can mention the protein complexes that assemble around activated growth factor receptors to allow the transduction of extracellular signals through the membrane and inside the cell (1). Because of their diverse intrinsic properties, proteins exhibit variable difficulty for structural biology studies. Before the rise of recombinant expression methods, only a minority of protein structures were determined, representing mainly favourable cases: proteins of high abundance in their natural source which could be purified and crystallized, in contrast to rare proteins that were often refractory to crystallization. The advent of methods for recombinant protein overexpression was a breakthrough in this area. It was followed by an increasing number of publications describing the crystallization of proteins, not under their native form, but in modified versions after sequence engineering. First we will consider the classical use of molecular biology applied to optimize the expression system for a recombinant protein for structural biology, without modification of its sequence. In the second part, we will deal with molecular biology procedures aimed at engineering the properties of a protein through sequence modifications in order to make its crystallization possible. In the last part we will give an example where molecular biology can help solve a crystallographic problem, namely that of phase determination by introducing anomalous scatterers (e.g. selenium atoms) into the protein of interest. Whenever extraction of a protein from its natural source appears unsuitable for structural studies, molecular biology resources can be brought in, initially aiming at choosing and setting up an appropriate expression system. This initial approach could involve comparing various expression hosts and vectors and deciding if the protein is to be produced as a fusion to facilitate its purification.

scholarly journals Mechanism of ribosome shutdown by RsfS in Staphylococcus aureus revealed by integrative structural biology approach

2020 ◽  
Vol 11 (1) ◽  
Author(s):  
Iskander Khusainov ◽  
Bulat Fatkhullin ◽  
Simone Pellegrino ◽  
Aydar Bikmullin ◽  
Wen-ti Liu ◽  
...  
Keyword(s):  
Staphylococcus Aureus ◽  
Structural Biology ◽  
Integrative Structural Biology

scholarly journals Integrative Structural Biology of the Calcium Dependent Type 2 Secretion Pseudopilus

2018 ◽  
Vol 114 (3) ◽  
pp. 229a
Author(s):  
Aracelys Lopez-Castilla ◽  
Benjamin Bardiaux ◽  
Jenny-Lee Thomassin ◽  
Weili Zheng ◽  
Michael Nilges ◽  
...  
Keyword(s):  
Structural Biology ◽  
Calcium Dependent ◽  
Integrative Structural Biology ◽  
Dependent Type ◽  
Type 2 Secretion

scholarly journals Studying Conformational Changes of the Yersinia Type-III-Secretion Effector YopO in Solution by Integrative Structural Biology

Structure ◽  
2019 ◽  
Vol 27 (9) ◽  
pp. 1416-1426.e3 ◽  
Author(s):  
Martin F. Peter ◽  
Anne T. Tuukkanen ◽  
Caspar A. Heubach ◽  
Alexander Selsam ◽  
Fraser G. Duthie ◽  
...  
Keyword(s):  
Structural Biology ◽  
Conformational Changes ◽  
Type Iii Secretion ◽  
Type Iii ◽  
Integrative Structural Biology ◽  
Type Iii Secretion Effector

Large, dynamic, multi-protein complexes: a challenge for structural biology

2014 ◽  
Vol 26 (46) ◽  
pp. 463103 ◽  
Author(s):  
Bartosz Różycki ◽  
Evzen Boura
Keyword(s):  
Structural Biology ◽  
Protein Complexes

New structural and functional insights from in-cell NMR

2018 ◽  
Vol 2 (1) ◽  
pp. 29-38 ◽  
Author(s):  
Enrico Luchinat ◽  
Lucia Banci
Keyword(s):  
Oxidative Stress ◽  
Structural Biology ◽  
Structural Characterization ◽  
Living Cells ◽  
Atomic Resolution ◽  
Structural And Functional Properties ◽  
Cellular Context ◽  
Dynamical Properties ◽  
Partner Proteins ◽  
And Oxidative Stress

In recent years, it has become evident that structural characterization would gain significantly in terms of biological relevance if framed within a cellular context, while still maintaining the atomic resolution. Therefore, major efforts have been devoted to developing Cellular Structural Biology approaches. In this respect, in-cell NMR can provide and has provided relevant contributions to the field, not only to investigate the structural and dynamical properties of macromolecules in solution but, even more relevant, to understand functional processes directly in living cells and the factors that modulate them, such as exogenous molecules, partner proteins, and oxidative stress. In this commentary, we review and discuss some of the main contributions to the understanding of protein structural and functional properties achieved by in-cell NMR.

scholarly journals Towards an integrative structural biology approach: combining Cryo-TEM, X-ray crystallography, and NMR

2014 ◽  
Vol 15 (3) ◽  
pp. 117-124 ◽  
Author(s):  
Jeffrey Lengyel ◽  
Eric Hnath ◽  
Marc Storms ◽  
Thomas Wohlfarth
Keyword(s):  
Structural Biology ◽  
X Ray ◽  
X Ray Crystallography ◽  
Integrative Structural Biology
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