Abstract:
:Current progress in computational structure-based protein design is reviewed in the areas of methodology and applications. Foundational advances include new potential functions, more efficient ways of computing energetics, flexible treatments of solvent, and useful energy function approximations, as well as ensemble-based approaches to scoring designs for inclusion of entropic effects, improvements to guaranteed and to stochastic search techniques, and methods to design combinatorial libraries for screening and selection. Applications include new approaches and successes in the design of specificity for protein folding, binding, and catalysis, in the redesign of proteins for enhanced binding affinity, and in the application of design technology to study and alter enzyme catalysis. Computational protein design continues to mature and advance.
journal_name
Curr Opin Biotechnoljournal_title
Current opinion in biotechnologyauthors
Lippow SM,Tidor Bdoi
10.1016/j.copbio.2007.04.009subject
Has Abstractpub_date
2007-08-01 00:00:00pages
305-11issue
4eissn
0958-1669issn
1879-0429pii
S0958-1669(07)00077-8journal_volume
18pub_type
杂志文章,评审abstract::Realizing the economic benefits of alternative substrates for commodity chemical bioproduction typically requires significant metabolic engineering of common model organisms, such as Saccharomyces cerevisiae. A growing toolkit is enabling engineering of non-conventional yeast that have robust native metabolism for xyl...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2017.12.003
更新日期:2018-10-01 00:00:00
abstract::Biotechnology applications require engineering complex multi-genic traits. The lack of knowledge on the genetic basis of complex phenotypes restricts our ability to rationally engineer them. However, complex phenotypes can be engineered at the systems level, utilizing directed evolution strategies that drive whole bio...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2016.03.016
更新日期:2016-06-01 00:00:00
abstract::RNA enzymes or ribozymes are receiving considerable attention for their potential use as highly specific inhibitors of gene expression. From the basic science perspective, the mechanisms by which ribozymes catalyze site-specific cleavage (and in some cases ligation) reactions provide exciting and active areas of scien...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/0958-1669(92)90117-2
更新日期:1992-02-01 00:00:00
abstract::Given that protein-protein interactions (PPIs) regulate nearly every living process; the exploration of global and pathway-specific protein interaction networks is expected to have major implications in the understanding of diseases and for drug discovery. Consequently, the development and application of methodologies...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2008.06.005
更新日期:2008-08-01 00:00:00
abstract::The field of environmental monitoring has experienced a substantial progress in the last years but still the on-site control of contaminants is an elusive problem. In addition, the growing number of pollutant sources is accompanied by an increasing need of having efficient early warning systems. Several years ago bios...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2017.03.016
更新日期:2017-06-01 00:00:00
abstract::Many significant advances have occurred recently in the field of protein electrophoresis and related technologies. Improvements have been made in capillary electrophoresis in apparatus design, detection, and capillary modification with coatings and fillers. The transfer of proteins to a blot, the capacity to analyze a...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/0958-1669(93)90024-q
更新日期:1993-02-01 00:00:00
abstract::Redox enzymes in bioelectronic devices usually lack direct electrical contact with electrodes, owing to the spatial separation of their redox centers from the conductive surfaces by the protein shells. The reconstitution of apo-enzymes on cofactor-functionalized nanostructures associated with electrodes provides a mea...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2006.10.008
更新日期:2006-12-01 00:00:00
abstract::Over the past year there have been a number of recent advances in the fields of miniaturized reaction and separation systems, including the construction of fully integrated 'lab-on-a-chip' systems. Microreactors, which initially targeted DNA-based reactions such as the polymerase chain reaction, are now used in severa...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/s0958-1669(00)00166-x
更新日期:2001-02-01 00:00:00
abstract::Data visualization has developed in several directions: theoretical; methodological; and in new application areas. Advances include the development of a grammar of graphics, deeper understanding of human perception and implications for graphical layout, and better approaches to visualizing multi-dimensional data and l...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/s0958-1669(99)00060-9
更新日期:2000-02-01 00:00:00
abstract::Within Escherichia coli and other species, a clear codon bias exists among the 61 amino acid codons found within the population of mRNA molecules, and the level of cognate tRNA appears directly proportional to the frequency of codon usage. Given this situation, one would predict translational problems with an abundant...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/0958-1669(95)80082-4
更新日期:1995-10-01 00:00:00
abstract::The Silicon Cell initiative aims to understand cellular systems on the basis of the characteristics of their components. As a tool to achieve this, detailed kinetic models at the network reaction level are being constructed. Such detailed kinetic models are extremely useful for medical and biotechnological application...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2005.05.003
更新日期:2005-06-01 00:00:00
abstract::The continuing expansion of protein and genome sequence databases is an opportunity to identify novel enzymes with biotechnological applications. Whether applied to enzymology, chemical biology, systems biology, and microbiology, database mining must be 'user-friendly' so that experimentalists can devise focused strat...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2020.12.004
更新日期:2021-01-05 00:00:00
abstract::Culture-independent approaches, such as next-generation sequencing and microarray-based tools, provide insight into the identity and functional diversity of microbial communities. Although these approaches are potentially powerful tools in understanding microbial structure and function, there are a number of limitatio...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2012.10.020
更新日期:2013-06-01 00:00:00
abstract::Use of the polymerase chain reaction (PCR) has become increasingly widespread in virtually all aspects of molecular biology. Recently, novel ligation-independent methods have been developed for the cloning of DNA fragments amplified using PCR. Ligation-independent cloning utilizing the enzyme uracil DNA glycosylase (t...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/0958-1669(95)80006-9
更新日期:1995-02-01 00:00:00
abstract::Wastewater infrastructure is designed, in part, to remove microorganisms. However, many microorganisms are able to colonize infrastructure and resist treatment, resulting in an enormous flux of microorganisms to urban adjacent waters. These urban-associated microorganisms are discharged through three primary routes 1)...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2019.03.015
更新日期:2019-06-01 00:00:00
abstract::The quantification of intracellular fluxes via 13C metabolic flux analysis has become one of the major techniques to support systems-based metabolic engineering of industrial production hosts. Commonly, 13C studies are conducted using minimal media, however, a great variety of industrial processes rely on complex medi...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2018.07.001
更新日期:2018-12-01 00:00:00
abstract::Driven by the demand to enhance the economic balance of chemical processes, the transformation of a racemate into a single stereoisomer (the deracemization process) is one of the most important areas of research. The recent development of the combined use of enzyme and metal catalysis has led to efficient deracemizati...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/s0958-1669(03)00097-1
更新日期:2003-08-01 00:00:00
abstract::Several cell-based tissue-engineering therapies are emerging to regenerate damaged tissues. These strategies use autologous cells in combination with bioresorbable delivery materials. Major functions of a delivery scaffold are to provide initial mechanical stability, homogenous three-dimensional cell distribution, imp...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2004.08.010
更新日期:2004-10-01 00:00:00
abstract::The development of contrast agents that can be localized to a particular tissue or cellular epitope will potentially allow the noninvasive visualization and characterization of a variety of disease states. Recent advances have been made in the field of molecular imaging with magnetic resonance imaging and ultrasound a...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2004.11.001
更新日期:2005-02-01 00:00:00
abstract::Over the next decade, the impact of library synthesis will play a major role in shortening the lead optimization phase of drug discovery. The prognosis for combinatorial chemistry to discover fundamentally different new classes of therapeutically active small molecules against some of the more difficult biological tar...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/s0958-1669(97)80123-1
更新日期:1997-12-01 00:00:00
abstract::Wound healing can no longer be considered a generic term: it is the summation of a complex series of processes beginning with coagulation and ending in remodelling. This review, therefore, summarizes the past year's advances in growth factor research according to the roles of the individual growth factors in the speci...
journal_title:Current opinion in biotechnology
pub_type: 临床试验,杂志文章,评审
doi:10.1016/s0958-1669(05)80122-3
更新日期:1991-12-01 00:00:00
abstract::Fibrotic diseases occur in virtually every tissue of the body and are a major cause of mortality, yet they remain largely untreatable and poorly understood on a mechanistic level. The development of anti-fibrotic agents has been hampered, in part, by the insufficient fibrosis biomimicry provided by traditional in vitr...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2016.02.006
更新日期:2016-08-01 00:00:00
abstract::Stem cells reside in complex niches in which their behaviour is tightly regulated by various biochemical and biophysical signals. In order to unveil some of the crucial stem cell-niche interactions and expedite the implementation of stem cells in clinical and pharmaceutical applications, in vitro methodologies are bei...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2015.05.003
更新日期:2015-12-01 00:00:00
abstract::The pathway of monolignol biosynthesis involves many components interacting in a metabolic grid to regulate the supply and ratios of monolignols for lignification. The complexity of the pathway challenges any intuitive prediction of the output without mathematical modeling. Several models have been presented to quanti...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2018.12.003
更新日期:2019-04-01 00:00:00
abstract::The scanning transmission electron microscope provides structural and chemical information of a specimen at atomic-scale resolution and complements conventional transmission electron microscopy techniques. Mass measurements can now be performed routinely on a wide range of molecular and supramolecular structures using...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/0958-1669(93)90005-h
更新日期:1993-08-01 00:00:00
abstract::RNA plays important roles in the regulation of gene expressions and other cellular functions. It functions as both as an informational carrier and a nanomachine due to its complementary base-pairing ability and complexed three-dimensional structure. Several nanostructures have been designed and constructed by exploiti...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2018.11.006
更新日期:2019-08-01 00:00:00
abstract::Synthetic proteins provide important information about the principles of protein structure. They illuminate the processes of natural protein evaluation, but are not limited by these processes. Here, we review studies of several mutant proteins and discuss the general principles that can be derived from them. ...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/0958-1669(91)90085-j
更新日期:1991-08-01 00:00:00
abstract::Advances in retooling microorganisms have enabled bioproduction of 'drop-in' biofuels, fuels that are compatible with existing spark-ignition, compression-ignition, and gas-turbine engines. As the majority of petroleum consumption in the United States consists of gasoline (47%), diesel fuel and heating oil (21%), and ...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2017.03.004
更新日期:2017-06-01 00:00:00
abstract::Recent advances in the use of fluorescence spectroscopy to study protein interactions have primarily involved combinations of classic fluorescence techniques, novel probe and coupling chemistries, and advances in laser excitation and detection capabilities. For example, new coupling strategies for fluorescent probes h...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章
doi:10.1016/s0958-1669(97)80156-5
更新日期:1997-02-01 00:00:00
abstract::Soft rot pathogens cause significant losses worldwide in fruit and vegetable production during the growing season and after harvest. These pathogens engage in molecular interactions with their plant hosts via acyl-homoserine lactone (AHL) quorum sensing, pectin metabolites, phenolic acids, and auxin. The AHL-based int...
journal_title:Current opinion in biotechnology
pub_type: 杂志文章,评审
doi:10.1016/j.copbio.2009.01.005
更新日期:2009-04-01 00:00:00