Abstract:
:The search for novel enzymes is an important but difficult task in functional genomics. Here, we present a systematic method based on in vitro assays in combination with metabolite profiling to discover novel enzymatic activities. A complex mixture of metabolites is incubated with purified candidate proteins and the reaction mixture is subsequently profiled by capillary electrophoresis electrospray ionization mass spectrometry (CE-MS). Specific changes in the metabolite composition can directly suggest the presence of an enzymatic activity while subsequent identification of the compounds whose level changed specifically can pinpoint the actual substrate(s) and product(s) of the reaction. We first evaluated the method using several Escherichia coli metabolic enzymes and then applied it to the functional screening of uncharacterized proteins. In this manner, YbhA and YbiV proteins were found to display both phosphotransferase and phosphatase activity toward different sugars/sugar phosphates. Our approach should be broadly applicable and useful for enzyme discovery in any system.
journal_name
J Proteome Resjournal_title
Journal of proteome researchauthors
Saito N,Robert M,Kitamura S,Baran R,Soga T,Mori H,Nishioka T,Tomita Mdoi
10.1021/pr0600576subject
Has Abstractpub_date
2006-08-01 00:00:00pages
1979-87issue
8eissn
1535-3893issn
1535-3907journal_volume
5pub_type
杂志文章abstract::In this paper, we describe a method for analyzing large-volume protein samples using capillary electrophoresis in conjunction with laser-induced fluorescence detection (CE-LIF). To improve the stacking and separation efficiencies of proteins, we added either 0.01% sodium dodecyl sulfate (SDS) or 0.01% poly(ethylene ox...
journal_title:Journal of proteome research
pub_type: 杂志文章
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更新日期:2006-02-01 00:00:00
abstract::Metal based chemotherapeutic drugs are widely used as an effective method to defeat various cancers. In this study, the mechanism of action of a novel therapeutic agent, [Pd(sac)(terpy)](sac)·4H2O (sac = saccharinate, and terpy = 2,2':6',2″-terpyridine) was studied. To better understand the proteomic changes in respon...
journal_title:Journal of proteome research
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更新日期:2014-11-07 00:00:00
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journal_title:Journal of proteome research
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更新日期:2005-03-01 00:00:00
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journal_title:Journal of proteome research
pub_type: 杂志文章
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abstract::T lymphocytes mediate cellular and humoral defense against foreign bodies or autoantigens. An understanding of T-cell information processing furthers studies of the immunological response. We describe a large-scale phosphorylation analysis of primary T cells using a multidimensional separation strategy, involving prep...
journal_title:Journal of proteome research
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journal_title:Journal of proteome research
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更新日期:2013-06-07 00:00:00
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journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/pr8006478
更新日期:2009-01-01 00:00:00
abstract::High-resolution proton nuclear magnetic resonance (NMR) spectrometry of biofluids has been increasingly used in laboratory diagnosis of various diseases. In this study, we extended the use of (1)H NMR spectroscopy for laboratory diagnosis of exudative pleural effusions using pleural fluids. We compared this new NMR-ba...
journal_title:Journal of proteome research
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更新日期:2014-09-05 00:00:00
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journal_title:Journal of proteome research
pub_type: 杂志文章
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更新日期:2015-08-07 00:00:00
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journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/acs.jproteome.0c00822
更新日期:2021-01-04 00:00:00
abstract::We report the use of chemical derivatization with MALDI-MS/MS analysis for de novo sequence analysis. Using three frequently used homology-based search algorithms, we were able to identify more than 40 proteins from banana, a nonmodel plant with unsequenced genome. Furthermore, this approach allowed the identification...
journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/pr0601943
更新日期:2007-01-01 00:00:00
abstract::The proteome of any system is a dynamic entity, such that the intracellular concentration of a protein is dictated by the relative rates of synthesis and degradation. In this work, we have analyzed time-dependent changes in the incorporation of a stable amino acid resolved precursor, a protocol we refer to as "dynamic...
journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/pr800641v
更新日期:2009-01-01 00:00:00
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journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/pr7006818
更新日期:2008-01-01 00:00:00
abstract::Frontotemporal lobar degeneration (FTLD) is an umbrella term for a heterogeneous group of young-onset dementias of uncertain prevalence and incidence worldwide. Atypical cases of FTLD with fused in sarcoma inclusions (aFTLD-U) have been described recently, but their molecular characterization is still due. Using shotg...
journal_title:Journal of proteome research
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更新日期:2012-04-06 00:00:00
abstract::Rosiglitazone is a thiazolidinedione used to treat insulin resistance in diabetes. Although thiazolidinediones may also exert cardiovascular effects, contrasting results were reported. Favorable effects were shown for pioglitazone, whereas adverse reactions were suspected for rosiglitazone. Therefore, a reassessment o...
journal_title:Journal of proteome research
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更新日期:2010-01-01 00:00:00
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journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/pr049819s
更新日期:2005-01-01 00:00:00
abstract::While the proteome defines the expressed gene products, the metabolome results from reactions controlled by such gene products. Plasma represents an accessible "window" to the metabolome both in regard of availability and content. The wide range of the plasma metabolome, in terms of molecular diversity and abundance, ...
journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/pr8001639
更新日期:2008-08-01 00:00:00
abstract::Flooding is a serious problem for soybeans because it reduces growth and grain yield. Proteomic and metabolomic techniques were used to examine whether mitochondrial function is altered in soybeans by flooding stress. Mitochondrial fractions were purified from the roots and hypocotyls of 4-day-old soybean seedlings th...
journal_title:Journal of proteome research
pub_type: 杂志文章
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更新日期:2011-09-02 00:00:00
abstract::Cannabinoid 2 receptor (CB2R), a Class-A G-protein coupled receptor (GPCR), is a promising drug target under a wide array of pathological conditions. Rational drug design has been hindered due to our poor understanding of the structural features involved in ligand binding. Binding of a high-affinity biarylpyrazole inv...
journal_title:Journal of proteome research
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更新日期:2017-07-07 00:00:00
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journal_title:Journal of proteome research
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更新日期:2013-12-06 00:00:00
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更新日期:2006-04-01 00:00:00
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journal_title:Journal of proteome research
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更新日期:2012-05-04 00:00:00
abstract::Outbreaks of porcine epidemic diarrhea virus (PEDV) have caused significant lethality rates in neonatal piglets, which pose a serious threat to the swine industry worldwide. Available commercial vaccines fail to protect against the emergence of high virulence of PEDV variants. Therefore, the endemic state of the PEDV ...
journal_title:Journal of proteome research
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doi:10.1021/acs.jproteome.8b00897
更新日期:2019-04-05 00:00:00
abstract::The balance between comprehensively analyzing the proteome and using valuable mass spectrometry time is a genuine challenge in the field of proteomics. Multidimensional fractionation strategies have significantly increased proteome coverage, but often at the cost of increased mass analysis time, despite advances in ma...
journal_title:Journal of proteome research
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更新日期:2019-05-03 00:00:00
abstract::Cellular functions are largely carried out by noncovalent protein complexes that may exist within the cell as stable modules or as assemblies of dynamically changing composition, whose formation and decomposition are triggered in response to extracellular stimuli. The protein constituents of complexes often exhibit po...
journal_title:Journal of proteome research
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更新日期:2010-10-01 00:00:00
abstract::Ozonated autohemotherapy (O3-AHT) is a medical approach during which blood obtained from the patient is ozonated and injected back into the body. Despite an increasing number of evidence that O3-AHT is safe, this type of therapy remains controversial. To extend knowledge about the changes in blood evoked by O3-AHT, LC...
journal_title:Journal of proteome research
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更新日期:2012-12-07 00:00:00
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journal_title:Journal of proteome research
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更新日期:2018-10-05 00:00:00
abstract::Expansion of human articular chondrocytes (HACs) in serum-free medium (SFM) has been shown to be enhanced by the control of medium osmolality. HACs attained better growth when cultured at osmolalities lower than the average osmolality found in articular cartilage in vivo, although the specific causes for this improved...
journal_title:Journal of proteome research
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