Macromolecular assemblies supporting transcription-translation coupling

Transcription ◽  
2021 ◽  
pp. 1-23
Author(s):  
Michael W. Webster ◽  
Albert Weixlbaumer
Author(s):  
R.J. Barrnett

This subject, is like observing the panorama of a mountain range, magnificent towering peaks, but it doesn't take much duration of observation to recognize that they are still in the process of formation. The mountains consist of approaches, materials and methods and the rocky substance of information has accumulated to such a degree that I find myself concentrating on the foothills in the foreground in order to keep up with the advance; the edifices behind form a wonderous, substantive background. It's a short history for such an accumulation and much of it has been moved by the members of the societies that make up this International Federation. My panel of speakers are here to provide what we hope is an interesting scientific fare, based on the fact that there is a continuum of biological organization from biochemical molecules through macromolecular assemblies and cellular membranes to the cell itself. Indeed, this fact explains the whole range of towering peaks that have emerged progressively during the past 25 years.


Author(s):  
D. L. Taylor

Cells function through the complex temporal and spatial interplay of ions, metabolites, macromolecules and macromolecular assemblies. Biochemical approaches allow the investigator to define the components and the solution chemical reactions that might be involved in cellular functions. Static structural methods can yield information concerning the 2- and 3-D organization of known and unknown cellular constituents. Genetic and molecular techniques are powerful approaches that can alter specific functions through the manipulation of gene products and thus identify necessary components and sequences of molecular events. However, full knowledge of the mechanism of particular cell functions will require direct measurement of the interplay of cellular constituents. Therefore, there has been a need to develop methods that can yield chemical and molecular information in time and space in living cells, while allowing the integration of information from biochemical, molecular and genetic approaches at the cellular level.


2021 ◽  
Author(s):  
Zenita Adhireksan ◽  
Deepti Sharma ◽  
Phoi Leng Lee ◽  
Qiuye Bao ◽  
Sivaraman Padavattan ◽  
...  

Abstract Structural characterization of chromatin is challenging due to conformational and compositional heterogeneity in vivo and dynamic properties that limit achievable resolution in vitro. Although the maximum resolution for solving structures of large macromolecular assemblies by electron microscopy has recently undergone profound increases, X-ray crystallographic approaches may still offer advantages for certain systems. One such system is compact chromatin, wherein the crystalline state recapitulates the crowded molecular environment within the nucleus. Here we show that nucleosomal constructs with cohesive-ended DNA can be designed that assemble into different types of circular configurations or continuous fibers extending throughout crystals. We demonstrate the utility of the method for characterizing nucleosome compaction and linker histone binding at near-atomic resolution but also advance its application for tackling further problems in chromatin structural biology and for generating novel types of DNA nanostructures. We provide a library of cohesive-ended DNA fragment expression constructs and a strategy for engineering DNA-based nanomaterials with a seemingly vast potential variety of architectures and histone chemistries.


2021 ◽  
Vol 54 ◽  
Author(s):  
Deryck J. Mills

Abstract Cryo-electron microscopy (cryo-EM) has become the technique of choice for structural biology of macromolecular assemblies, after the ‘resolution revolution’ that has occurred in this field since 2012. With a suitable instrument, an appropriate electron detector and, last but not least, a cooperative sample it is now possible to collect images from which macromolecular structures can be determined to better than 2 Å resolution, where reliable atomic models can be built. By electron tomography and sub-tomogram averaging of cryo-samples, it is also possible to reconstruct subcellular structures to sub-nanometre resolution. This review describes the infrastructure that is needed to achieve this goal. Ideally, a cryo-EM lab will have a dedicated 300 kV electron microscope for data recording and a 200 kV instrument for screening cryo-samples, both with direct electron detectors, and at least one 120 kV EM for negative-stain screening at room temperature. Added to this should be ancillary equipment for specimen preparation, including a light microscope, carbon coater, plasma cleaner, glow discharge unit, a device for fast, robotic sample freezing, liquid nitrogen storage Dewars and a ready supply of clean liquid nitrogen. In practice, of course, the available budget will determine the number and types of microscopes and how elaborate the lab can be. The cryo-EM lab should be designed with adequate space for the electron microscopes and ancillary equipment, and should allow for sufficient storage space. Each electron microscope room should be connected to the image-processing computers by fibre-optic cables for the rapid transfer of large datasets. The cryo-EM lab should be overseen by a facility manager whose responsibilities include the day-to-day tasks to ensure that all microscopes are operating perfectly, organising service and repairs to minimise downtime, and controlling the budget. Large facilities will require additional support staff who help to oversee the operation of the facility and instruct new users.


2014 ◽  
Vol 47 (1) ◽  
pp. 237-244 ◽  
Author(s):  
Karsten Vogtt ◽  
Miriam Siebenbürger ◽  
Daniel Clemens ◽  
Christian Rabe ◽  
Peter Lindner ◽  
...  

Small-angle scattering methods have become routine techniques for the structural characterization of macromolecules and macromolecular assemblies like polymers, (block) copolymers or micelles in the spatial range from a few to hundreds of nanometres. Neutrons are valuable scattering probes, because they offer freedom with respect to scattering length density contrast and isotopic labelling of samples. In order to gain maximum benefit from the allotted experiment time, the instrumental setup must be optimized in terms of statistics of scattered intensity, resolution and accessible range in momentum transferQ. The new small-angle neutron scattering instrument V16/VSANS at the Helmholtz-Zentrum in Berlin, Germany, augments neutron guide collimation and pinhole optics with time-of-flight data recording and flexible chopper configuration. Thus, the availableQrange and the respective instrumental resolution in the intermediate and high momentum transfer regions can be adjusted and balanced to the individual experimental requirements. This renders V16/VSANS a flexible and versatile instrument for soft-matter research.


2017 ◽  
Vol 67 (5) ◽  
pp. 770-782.e6 ◽  
Author(s):  
Rajindra P. Aryal ◽  
Pieter Bas Kwak ◽  
Alfred G. Tamayo ◽  
Michael Gebert ◽  
Po-Lin Chiu ◽  
...  

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