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Structure and Dynamics of Photosystem II Light-Harvesting Complex Revealed by High-Resolution FTICR Mass Spectrometric Proteome Analysis

2008 Journal of the American Society for Mass Spectrometry  
A number of protein spots in 2D gels were found to contain a mixture of proteins, illustrating the feasibility of high-resolution mass spectrometry to identify proteins that remain unseparated in 2D gels  ...  of photosynthesis and photoprotection, were identified and characterized using high-resolution Fourier transform ion cyclotron resonance mass spectrometry (FTICR-MS).  ...  Acknowledgments This work has been supported in part by the Deutsche Forschungsgemeinschaft (Biopolymer-MS and Proteomics, 175/6-1 to M.P.; and AD92/1-3 to I.A.).  ... 
doi:10.1016/j.jasms.2008.03.014 pmid:18455927 fatcat:6t2hmdqu5jbyfmwm6ejintntbq

Structural characterisation of medically relevant protein assemblies by integrating mass spectrometry with computational modelling

Argyris Politis, Carla Schmidt
2018 Journal of Proteomics  
Significance: In this review we summarise the techniques of structural mass spectrometry often applied when studying protein-ligand complexes.  ...  We describe how the combination of the different mass spectrometry-based methods with computational strategies enable structural models at molecular levels of resolution.  ...  Structural mass spectrometry Proteomics reveals changes in protein expression and post-translational modifications The proteome is the entire set of proteins in a cell, an organism or a tissue at a defined  ... 
doi:10.1016/j.jprot.2017.04.019 pmid:28461040 fatcat:46ocsvaqwjhwbncx3nzpa4wx2m

Metaproteomics approaches and techniques: A review

Ayesha Ameen, Shahid Raza
2017 International Journal of Advances in Scientific Research  
Mass spectrometry which is used to separate the proteins by desorption and ionization using a gas on a liquid medium.  ...  The concepts of metaproteomics come with advancement in proteomics techniques which includes 2D gel electrophoresis for the identification of proteins and peptides in a particular microbial community.  ...  The complex samples are characterized by mass spectrometry due to advancement in this technique the quality of result is better.  ... 
doi:10.7439/ijasr.v3i5.4167 fatcat:bn2z3cqyy5hqfckspo7jxzaq4q

Piqmie: A Web Tool For Semi-Quantitative Proteomics Applied To Dissect The Mechanism Of Cancer Therapy Based On Interference With Dna Repair

Arnold Kuzniar, Alex Zelensky, Roland Kanaar
2015 Zenodo  
PIQMIe is a web-based proteomics tool that aids in reliable and scalable data management, analysis and visualization of semi-quantitative mass spectrometry based experiments.  ...  Here we used PIQMIe to mine and visualize the results from mass spectrometry experiments that not only reveal new DNA repair relevant interactors of the BRCA2 protein but also reveal changes in the BRCA2  ...  Mass spectrometry (LC-MS/MS) Pull-down Summary Stable isotope labeling with amino acids in cell culture (SILAC)-based mass spectrometry is a mature technique in semi-quantitative proteomics.  ... 
doi:10.5281/zenodo.28530 fatcat:xwvfqr5nkjadzlwkj35bgwqheq

Page 457 of Journal of Mass Spectrometry Vol. 39, Issue 4 [page]

2004 Journal of Mass Spectrometry  
Zooming- in on the proteome: very narrow-range immobilized pH gradients reveal more protein species and isoforms. Electrophoresis 2001; 22: 2865.  ...  Advances in proteome analysis by mass spectrometry. J. Biol. Chem. 2001; 276: 45 497. Link AJ, Eng J, Schieltz DM, Carmack E, Mize GJ, Morris DR, Garvik BM, Yates JR III.  ... 

Understanding the fundamentals of proteomics

Suliman A. Alsagaby
2019 Current topics in peptide & protein research  
This review discusses the fundamentals of proteomics with respect to proteome complexity, reducing sample complexity by fractionation and separation methods, and protein identification based on peptide-mass  ...  This review also presents a number of common proteomics workflows, the combination of some of which is likely to reveal larger proteome coverage.  ...  This strategy decreases the proteome complexity by extracting different parts of the proteome in a number of fractions, which are individually studied by mass spectrometry.  ... 
doi:10.31300/ctppr.20.2019.25-33 fatcat:ycnihfxlnnao3cntqvahg7mjhm

Focus on proteomics in Honor of Ruedi Aebersold, 2002 Biemann Awardee

Carol V. Robinson, Michael L. Gross
2003 Journal of the American Society for Mass Spectrometry  
On the same theme, the next article "Trypsin Catalyzed 16 O-to-18 O Exchange for Comparative Proteomics: Tandem Mass Spectrometry Comparison using MALDI-TOF, ESI-QTOF and ESI-Ion Trap Mass Spectrometers  ...  During the last decade enormous progress has been made in the application of mass spectrometry to proteomics, an area to which Ruedi has contributed both generally and specifically with his isotope labelling  ... 
doi:10.1016/s1044-0305(03)00328-3 pmid:12837589 fatcat:2zkieyputna65l3n5xdzgqzga4

Proteomic Analysis of Protein Posttranslational Modifications by Mass Spectrometry

Danielle L. Swaney, Judit Villén
2016 Cold Spring Harbor Protocols  
The presence of phosphorylation on a specific amino acid can be detected in mass spectrometry-based proteomics experiments by a characteristic mass addition of 79.96633 Da.  ...  PROTEOMIC METHODS Mass spectrometry-based proteomics is a powerful approach to identify proteins modified by a particular PTM.  ... 
doi:10.1101/pdb.top077743 pmid:26933252 fatcat:5iq4edxgjvb3jntvrzldc4t7qe

Sequencing covalent modifications of membrane proteins

J. P Whitelegge
2006 Journal of Experimental Botany  
When analysed by top-down proteomics, the small subunits of the cytochrome b 6 f complex from Arabidopsis thylakoids reveal novel post-transcriptional/ translational modifications including the presence  ...  Intact mass proteomics is advancing through the development of core technologies in separations and mass spectrometry, with the goal of providing comprehensive primary structure coverage that includes  ...  Acknowledgements Richard LeDuc, Yong-Bin Kim, Andrew Forbes, and the rest of the software development team in Neil Kelleher's Laboratory are thanked.  ... 
doi:10.1093/jxb/erj163 pmid:16574746 fatcat:xnxytv73efbntnnkbk2sofy2gy

Analysis of posttranslational modifications of proteins by tandem mass spectrometry

Martin R. Larsen, Morten B. Trelle, Tine E. Thingholm, Ole N. Jensen
2006 BioTechniques  
Most PTMs can be detected by protein and peptide analysis by mass spectrometry (MS), either as a mass increment or a mass deficit relative to the nascent unmodified protein.  ...  Tandem mass spectrometry (MS/MS) provides a series of analytical features that are highly useful for the characterization of modified proteins via amino acid sequencing and specific detection of posttranslationally  ...  ACKNOWLEDGMENTS We thank our colleagues in the  ... 
doi:10.2144/000112201 pmid:16774123 fatcat:uczz5e2kprhbjmvjmi5pdh5i2q

Focus on industrial proteomics: dedicated to the late Dr. Robert S. Bordoli

Carol V. Robinson
2002 Journal of the American Society for Mass Spectrometry  
The literature reflects the substantial contribution made to mass spectrometry and proteomics by academic institutions.  ...  In January 1996 Bob began using a prototype Q-TOF mass spectrometer and to focus on the emerging role of mass spectrometry in proteomics.  ... 
doi:10.1016/s1044-0305(02)00419-1 pmid:12148800 fatcat:eyqubhtbfvam5aqu5nzcisaqve

Proteomics in pathology research

Megan S Lim, Kojo S J Elenitoba-Johnson
2004 Laboratory Investigation  
Acknowledgements This work was financially supported by the ARUP Institute for Clinical and Experimental Pathology.  ...  General Strategy for Mass Spectrometry-Based Proteomics Proteomic studies require the simplification of a complex mixture of proteins into less complex components that are more amenable for analysis.  ...  In parallel with the technological advancements in mass spectrometers, technological improvements in ionization methods have also enhanced the ability to analyze complex biologic molecules by mass spectrometry  ... 
doi:10.1038/labinvest.3700167 pmid:15311217 fatcat:ak6ltuqnmnd73ga5iferx2s45u

Organellar proteomics: turning inventories into insights

Jens S Andersen, Matthias Mann
2006 EMBO Reports  
Researchers are now applying robust mass-spectrometry-based proteomics methods to obtain an inventory of biochemically isolated organelles that contain hundreds of proteins.  ...  The dynamics of organelles can also be studied by quantitative proteomics, which offers powerful methods that are complementary to fluorescencebased microscopy.  ...  In principle, mass-spectrometry-based proteomics (Aebersold & Mann, 2003) allows all the proteins in a purified complex to be identified.  ... 
doi:10.1038/sj.embor.7400780 pmid:16953200 pmcid:PMC1559674 fatcat:5daq62knu5bstb45scn42pb2sy

Proteomics approaches to fibrotic disorders

Marjan Gucek
2012 Fibrogenesis & Tissue Repair  
This review provides an introduction to mass spectrometry based proteomics and discusses several proteomics approaches that are relevant in understanding the pathophysiology of fibrotic disorders and the  ...  This work was supported by the National Heart, Lung, and Blood (NHLBI) Intramural program of the National Institutes of Health.  ...  The full contents of the supplement are available online at supplements/5/S1.  ... 
doi:10.1186/1755-1536-5-s1-s10 pmid:23259639 pmcid:PMC3368766 fatcat:l73jtbxjlvbopbhpwmyn24ysbm

Proteomic approaches to uncover MMP function

Pascal Schlage, Ulrich auf dem Keller
2015 Matrix Biology  
Mass spectrometry-based proteomics extended our knowledge on MMP cleavage specificities and will help to develop more specific inhibitors as new therapeutics.  ...  New technologies and rapid advancements in development of powerful mass spectrometers allowed unprecedented insights into activities of matrix metalloproteinases (MMPs) within their complex extracellular  ...  analyzed by mass spectrometry.  ... 
doi:10.1016/j.matbio.2015.01.003 pmid:25603365 fatcat:p7tuykbrandxzl2lvd2ediv6z4
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