Cross-Linking Mass Spectrometry for Investigating Protein Conformations and Protein–Protein Interactions─A Method for All Seasons
Published 2021 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Cross-Linking Mass Spectrometry for Investigating Protein Conformations and Protein–Protein Interactions─A Method for All Seasons
Authors
Keywords
-
Journal
CHEMICAL REVIEWS
Volume -, Issue -, Pages -
Publisher
American Chemical Society (ACS)
Online
2021-11-19
DOI
10.1021/acs.chemrev.1c00786
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Expanding the Cross-Link Coverage of a Carboxyl-Group Specific Chemical Cross-Linking Strategy for Structural Proteomics Applications
- (2021) Azadeh Mohammadi et al. ANALYTICAL CHEMISTRY
- Advanced In Vivo Cross-Linking Mass Spectrometry Platform to Characterize Proteome-Wide Protein Interactions
- (2021) Martial Rey et al. ANALYTICAL CHEMISTRY
- Cross-linking mass spectrometry uncovers protein interactions and functional assemblies in synaptic vesicle membranes
- (2021) Sabine Wittig et al. Nature Communications
- Integrative structure of a 10-megadalton eukaryotic pyruvate dehydrogenase complex from native cell extracts
- (2021) Fotis L. Kyrilis et al. Cell Reports
- Structural Proteomics Methods to Interrogate the Conformations and Dynamics of Intrinsically Disordered Proteins
- (2021) Rebecca Beveridge et al. Frontiers in Chemistry
- First 3D-Structural Data of Full-Length Guanylyl Cyclase 1 in Rod-Outer-Segment Preparations of Bovine Retina by Cross-Linking/Mass Spectrometry
- (2021) Anne Rehkamp et al. JOURNAL OF MOLECULAR BIOLOGY
- MS Annika: A New Cross-Linking Search Engine
- (2021) Georg J. Pirklbauer et al. JOURNAL OF PROTEOME RESEARCH
- Labeling Preferences of Diazirines with Protein Biomolecules
- (2021) Alexander V. West et al. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
- Detergent-free Lipodisq Nanoparticles Facilitate High-Resolution Mass Spectrometry of Folded Integral Membrane Proteins
- (2021) Kin Kuan Hoi et al. NANO LETTERS
- Martini 3: a general purpose force field for coarse-grained molecular dynamics
- (2021) Paulo C. T. Souza et al. NATURE METHODS
- Integrative analysis reveals unique structural and functional features of the Smc5/6 complex
- (2021) You Yu et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Cross-Linking/Mass Spectrometry Combined with Ion Mobility on a timsTOF Pro Instrument for Structural Proteomics
- (2021) Christian H. Ihling et al. ANALYTICAL CHEMISTRY
- Towards low false discovery rate estimation for protein-protein interactions detected by chemical cross-linking
- (2021) Luitzen de Jong et al. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
- Quantitative interactome analysis with chemical cross-linking and mass spectrometry
- (2021) Helisa H. Wippel et al. CURRENT OPINION IN CHEMICAL BIOLOGY
- In Vivo Cross-Linking MS Reveals Conservation in OmpA Linkage to Different Classes of β-Lactamase Enzymes
- (2020) Xuefei Zhong et al. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
- Improved protein structure prediction using potentials from deep learning
- (2020) Andrew W. Senior et al. NATURE
- Missing regions within the molecular architecture of human fibrin clots structurally resolved by XL-MS and integrative structural modeling
- (2020) Oleg Klykov et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Structural dynamics of the human COP9 signalosome revealed by cross-linking mass spectrometry and integrative modeling
- (2020) Craig Gutierrez et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- A synthetic peptide library for benchmarking crosslinking-mass spectrometry search engines for proteins and protein complexes
- (2020) Rebecca Beveridge et al. Nature Communications
- Stitching the synapse: Cross-linking mass spectrometry into resolving synaptic protein interactions
- (2020) M. A. Gonzalez-Lozano et al. Science Advances
- Cross-linking/mass spectrometry at the crossroads
- (2020) Lolita Piersimoni et al. ANALYTICAL AND BIOANALYTICAL CHEMISTRY
- Fast and Highly Efficient Affinity Enrichment of Azide-A-DSBSO Cross-Linked Peptides
- (2020) Manuel Matzinger et al. JOURNAL OF PROTEOME RESEARCH
- A protocol for studying structural dynamics of proteins by quantitative crosslinking mass spectrometry and data-independent acquisition
- (2020) Fränze Müller et al. Journal of Proteomics
- An experimentally generated peptide database increases the sensitivity of XL-MS with complex samples
- (2020) Iwan Parfentev et al. Journal of Proteomics
- THE MAKING OF A FOOTPRINT IN PROTEIN FOOTPRINTING: A REVIEW IN HONOR OF MICHAEL L. GROSS
- (2020) Alan McKenzie‐Coe et al. MASS SPECTROMETRY REVIEWS
- Macromolecular modeling and design in Rosetta: recent methods and frameworks
- (2020) Julia Koehler Leman et al. NATURE METHODS
- Integrative structure and function of the yeast exocyst complex
- (2020) Sai J. Ganesan et al. PROTEIN SCIENCE
- Integrated Structural Modeling of Full-Length LRH-1 Reveals Inter-domain Interactions Contribute to Receptor Structure and Function
- (2020) Corey D. Seacrist et al. STRUCTURE
- Flexibility of intrinsically disordered degrons in AUX/IAA proteins reinforces auxin co-receptor assemblies
- (2020) Michael Niemeyer et al. Nature Communications
- How paired PSII–LHCII supercomplexes mediate the stacking of plant thylakoid membranes unveiled by structural mass-spectrometry
- (2020) Pascal Albanese et al. Nature Communications
- Expanding the Depth and Sensitivity of Cross-Link Identification by Differential Ion Mobility Using High-Field Asymmetric Waveform Ion Mobility Spectrometry
- (2020) Lennart Schnirch et al. ANALYTICAL CHEMISTRY
- Benefits of Collisional Cross Section Assisted Precursor Selection (caps-PASEF) for Cross-linking Mass Spectrometry
- (2020) Babara Steigenberger et al. MOLECULAR & CELLULAR PROTEOMICS
- Emerging role of Mass Spectrometry‐Based Structural Proteomics in Elucidating Intrinsic Disorder in Proteins
- (2020) Gopa Mitra PROTEOMICS
- In-cell architecture of an actively transcribing-translating expressome
- (2020) Francis J. O’Reilly et al. SCIENCE
- Combining Information from Crosslinks and Monolinks in the Modeling of Protein Structures
- (2020) Matthew Sinnott et al. STRUCTURE
- Mass spectrometry reveals the chemistry of formaldehyde cross-linking in structured proteins
- (2020) Tamar Tayri-Wilk et al. Nature Communications
- Structural analysis of 70S ribosomes by cross-linking/mass spectrometry reveals conformational plasticity
- (2020) Christian Tüting et al. Scientific Reports
- Isobaric Quantitative Protein Interaction Reporter Technology for Comparative Interactome Studies
- (2020) Juan D. Chavez et al. ANALYTICAL CHEMISTRY
- A Structural Model of the Endogenous Human BAF Complex Informs Disease Mechanisms
- (2020) Nazar Mashtalir et al. CELL
- Unstructured regions of large enzymatic complexes control the availability of metabolites with signaling functions
- (2020) Ioannis Skalidis et al. Cell Communication and Signaling
- OpenPepXL: An open-source tool for sensitive identification of cross-linked peptides in XL-MS
- (2020) Eugen Netz et al. MOLECULAR & CELLULAR PROTEOMICS
- In-cell architecture of the nuclear pore and snapshots of its turnover
- (2020) Matteo Allegretti et al. NATURE
- Structure-based validation can drastically underestimate error rate in proteome-wide cross-linking mass spectrometry studies
- (2020) Kumar Yugandhar et al. NATURE METHODS
- Structural impact of K63 ubiquitin on yeast translocating ribosomes under oxidative stress
- (2020) Ye Zhou et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- In situ structural analysis of SARS-CoV-2 spike reveals flexibility mediated by three hinges
- (2020) Beata Turoňová et al. SCIENCE
- Toward Increased Reliability, Transparency, and Accessibility in Cross-linking Mass Spectrometry
- (2020) Alexander Leitner et al. STRUCTURE
- Deep learning enables the atomic structure determination of the Fanconi Anemia core complex from cryoEM
- (2020) Daniel P. Farrell et al. IUCrJ
- A composite filter for low FDR of protein-protein interactions detected by in vivo cross-linking
- (2020) Luitzen de Jong et al. Journal of Proteomics
- RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences
- (2020) Stephen K Burley et al. NUCLEIC ACIDS RESEARCH
- Hydrogen-Deuterium Exchange Mass Spectrometry: A Novel Structural Biology Approach to Structure, Dynamics and Interactions of Proteins and Their Complexes
- (2020) Oliver Ozohanics et al. Life-Basel
- TopoLink: Evaluation of structural models using chemical crosslinking distance constraints
- (2019) Allan J R Ferrari et al. BIOINFORMATICS
- Data-independent acquisition improves quantitative cross-linking mass spectrometry
- (2019) Fränze Müller et al. MOLECULAR & CELLULAR PROTEOMICS
- Recommendations for reporting ion mobility Mass Spectrometry measurements
- (2019) Valérie Gabelica et al. MASS SPECTROMETRY REVIEWS
- Integrative Structure Modeling: Overview and Assessment
- (2019) Merav Braitbard et al. Annual Review of Biochemistry
- The First Community-Wide, Comparative Cross-linking Mass Spectrometry Study
- (2019) Claudio Iacobucci et al. ANALYTICAL CHEMISTRY
- Structure and Assembly of the Nuclear Pore Complex
- (2019) Bernhard Hampoelz et al. Annual Review of Biophysics
- Optimized Cross-Linking Mass Spectrometry for in Situ Interaction Proteomics
- (2019) Zheng Ser et al. JOURNAL OF PROTEOME RESEARCH
- Structural basis of specific H2A K13/K15 ubiquitination by RNF168
- (2019) Velten Horn et al. Nature Communications
- A Simple Cross-Linking/Mass Spectrometry Workflow for Studying System-wide Protein Interactions
- (2019) Michael Götze et al. ANALYTICAL CHEMISTRY
- Principles for Integrative Structural Biology Studies
- (2019) Michael P. Rout et al. CELL
- CSNAP, the smallest CSN subunit, modulates proteostasis through cullin-RING ubiquitin ligases
- (2019) Maria G. Füzesi-Levi et al. CELL DEATH AND DIFFERENTIATION
- Recommendations for performing, interpreting and reporting hydrogen deuterium exchange mass spectrometry (HDX-MS) experiments
- (2019) Glenn R. Masson et al. NATURE METHODS
- Systems structural biology measurements by in vivo cross-linking with mass spectrometry
- (2019) Juan D. Chavez et al. Nature Protocols
- The Molecular Architecture of Native BBSome Obtained by an Integrated Structural Approach
- (2019) Hui-Ting Chou et al. STRUCTURE
- Tau local structure shields an amyloid-forming motif and controls aggregation propensity
- (2019) Dailu Chen et al. Nature Communications
- A high-speed search engine pLink 2 with systematic evaluation for proteome-scale identification of cross-linked peptides
- (2019) Zhen-Lin Chen et al. Nature Communications
- The CroCo cross-link converter: a user-centred tool to convert results from crosslinking mass spectrometry experiments
- (2019) Julian Bender et al. BIOINFORMATICS
- An integrated workflow for crosslinking mass spectrometry
- (2019) Marta L Mendes et al. Molecular Systems Biology
- Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix
- (2019) Dorothee Liebschner et al. Acta Crystallographica Section D-Structural Biology
- PhoX: An IMAC-Enrichable Cross-Linking Reagent
- (2019) Barbara Steigenberger et al. ACS Central Science
- A Click‐Chemistry‐Based Enrichable Crosslinker for Structural and Protein Interaction Analysis by Mass Spectrometry
- (2019) Michael Stadlmeier et al. CHEMBIOCHEM
- Integrative Modelling of Biomolecular Complexes
- (2019) P.I. Koukos et al. JOURNAL OF MOLECULAR BIOLOGY
- Structure of the Fanconi anaemia monoubiquitin ligase complex
- (2019) Shabih Shakeel et al. NATURE
- Deep learning extends de novo protein modelling coverage of genomes using iteratively predicted structural constraints
- (2019) Joe G. Greener et al. Nature Communications
- Improving mass spectrometry analysis of protein structures with arginine-selective chemical cross-linkers
- (2019) Alexander X. Jones et al. Nature Communications
- In Situ Structural Restraints from Cross-Linking Mass Spectrometry in Human Mitochondria
- (2019) Petra S. J. Ryl et al. JOURNAL OF PROTEOME RESEARCH
- High-density chemical cross-linking for modeling protein interactions
- (2019) Julian Mintseris et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Cross-linking/mass spectrometry to get a closer view on protein interaction networks
- (2019) Claudio Iacobucci et al. CURRENT OPINION IN BIOTECHNOLOGY
- Carboxyl-Photo-Reactive MS-Cleavable Cross-Linkers: Unveiling a Hidden Aspect of Diazirine-Based Reagents
- (2018) Claudio Iacobucci et al. ANALYTICAL CHEMISTRY
- Carboxylate-Selective Chemical Cross-Linkers for Mass Spectrometric Analysis of Protein Structures
- (2018) Xiaoyun Zhang et al. ANALYTICAL CHEMISTRY
- XPlex: An Effective, Multiplex Cross-Linking Chemistry for Acidic Residues
- (2018) Mariana Fioramonte et al. ANALYTICAL CHEMISTRY
- Mango: A General Tool for Collision Induced Dissociation-Cleavable Cross-Linked Peptide Identification
- (2018) Jared P. Mohr et al. ANALYTICAL CHEMISTRY
- Cross-Linking/Mass Spectrometry for Studying Protein Structures and Protein-Protein Interactions: Where Are We Now and Where Should We Go from Here?
- (2018) Andrea Sinz ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
- Jwalk and MNXL web server: model validation using restraints from crosslinking mass spectrometry
- (2018) Joshua M A Bullock et al. BIOINFORMATICS
- Xolik: finding cross-linked peptides with maximum paired scores in linear time
- (2018) Jiaan Dai et al. BIOINFORMATICS
- Unique insights to intrinsically disordered proteins provided by ion mobility mass spectrometry
- (2018) Dale Stuchfield et al. CURRENT OPINION IN CHEMICAL BIOLOGY
- Intrinsically Disordered Proteins Link Alternative Splicing and Post-translational Modifications to Complex Cell Signaling and Regulation
- (2018) Jianhong Zhou et al. JOURNAL OF MOLECULAR BIOLOGY
- Identification of MS-Cleavable and Noncleavable Chemically Cross-Linked Peptides with MetaMorpheus
- (2018) Lei Lu et al. JOURNAL OF PROTEOME RESEARCH
- The First MS-Cleavable, Photo-Thiol-Reactive Cross-Linker for Protein Structural Studies
- (2018) Claudio Iacobucci et al. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
- Free radical-initiated peptide sequencing (FRIPS)-based cross-linkers for improved peptide and protein structure analysis
- (2018) Claudio Iacobucci et al. MASS SPECTROMETRY REVIEWS
- Mass spectrometry-enabled structural biology of membrane proteins
- (2018) Antonio N. Calabrese et al. METHODS
- Histone interaction landscapes visualized by crosslinking mass spectrometry in intact cell nuclei
- (2018) Domenico Fasci et al. MOLECULAR & CELLULAR PROTEOMICS
- Characterization of homodimer interfaces with cross-linking mass spectrometry and isotopically labeled proteins
- (2018) Diogo B Lima et al. Nature Protocols
- Defining distance restraints in HADDOCK
- (2018) Alexandre M. J. J. Bonvin et al. Nature Protocols
- Cryo-EM structure of the exocyst complex
- (2018) Kunrong Mei et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Synthesis of CID-cleavable protein crosslinking agents containing quaternary amines for structural mass spectrometry
- (2018) Susan E. Hagen et al. ORGANIC & BIOMOLECULAR CHEMISTRY
- Modeling Protein Complexes Using Restraints from Crosslinking Mass Spectrometry
- (2018) Joshua Matthew Allen Bullock et al. STRUCTURE
- Conformational analysis of complex protein states by hydrogen/deuterium exchange mass spectrometry (HDX-MS): Challenges and emerging solutions
- (2018) Esben Trabjerg et al. TRAC-TRENDS IN ANALYTICAL CHEMISTRY
- Cryo-EM structure of the exocyst complex
- (2018) Kunrong Mei et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Crosslinking Mass Spectrometry Goes In-Tissue
- (2018) Andrea Sinz Cell Systems
- Chemical Crosslinking Mass Spectrometry Analysis of Protein Conformations and Supercomplexes in Heart Tissue
- (2018) Juan D. Chavez et al. Cell Systems
- Integrative structure and functional anatomy of a nuclear pore complex
- (2018) Seung Joong Kim et al. NATURE
- Expanded Coverage of the 26S Proteasome Conformational Landscape Reveals Mechanisms of Peptidase Gating
- (2018) Markus R. Eisele et al. Cell Reports
- Enzymatic complexes across scales
- (2018) Panagiotis L. Kastritis et al. Essays in Biochemistry
- Quantitative cross-linking/mass spectrometry to elucidate structural changes in proteins and their complexes
- (2018) Zhuo A. Chen et al. Nature Protocols
- Efficient and robust proteome-wide approaches for cross-linking mass spectrometry
- (2018) Oleg Klykov et al. Nature Protocols
- A cross-linking/mass spectrometry workflow based on MS-cleavable cross-linkers and the MeroX software for studying protein structures and protein–protein interactions
- (2018) Claudio Iacobucci et al. Nature Protocols
- Cross-linking mass spectrometry: methods and applications in structural, molecular and systems biology
- (2018) Francis J. O’Reilly et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Quantitative collision-induced unfolding differentiates model antibody-drug conjugates
- (2018) Yuwei Tian et al. PROTEIN SCIENCE
- Conformational Characterization and Classification of Intrinsically Disordered Proteins by Native Mass Spectrometry and Charge-State Distribution Analysis
- (2018) Carlo Santambrogio et al. PROTEOMICS
- Protein Dynamics in Solution by Quantitative Crosslinking/Mass Spectrometry
- (2018) Zhuo A. Chen et al. TRENDS IN BIOCHEMICAL SCIENCES
- Fold or not to fold upon binding — does it really matter?
- (2018) Monika Fuxreiter CURRENT OPINION IN STRUCTURAL BIOLOGY
- Chemical cross-linking with mass spectrometry: a tool for systems structural biology
- (2018) Juan D Chavez et al. CURRENT OPINION IN CHEMICAL BIOLOGY
- Evidence for a Strong Correlation Between Transcription Factor Protein Disorder and Organismic Complexity
- (2017) Inmaculada Yruela et al. Genome Biology and Evolution
- CLMSVault: A Software Suite for Protein Cross-Linking Mass-Spectrometry Data Analysis and Visualization
- (2017) Mathieu Courcelles et al. JOURNAL OF PROTEOME RESEARCH
- In-Culture Cross-Linking of Bacterial Cells Reveals Large-Scale Dynamic Protein–Protein Interactions at the Peptide Level
- (2017) Luitzen de Jong et al. JOURNAL OF PROTEOME RESEARCH
- Exhaustively Identifying Cross-Linked Peptides with a Linear Computational Complexity
- (2017) Fengchao Yu et al. JOURNAL OF PROTEOME RESEARCH
- On the Reproducibility of Label-Free Quantitative Cross-Linking/Mass Spectrometry
- (2017) Fränze Müller et al. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
- Probing Conformational Dynamics of Tau Protein by Hydrogen/Deuterium Exchange Mass Spectrometry
- (2017) Richard Y.-C. Huang et al. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
- Amino Acid Insertion Frequencies Arising from Photoproducts Generated Using Aliphatic Diazirines
- (2017) Daniel S. Ziemianowicz et al. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
- The interactome of intact mitochondria by cross-linking mass spectrometry provides evidence for coexisting respiratory supercomplexes
- (2017) Fan Liu et al. MOLECULAR & CELLULAR PROTEOMICS
- Development of Large-scale Cross-linking Mass Spectrometry
- (2017) Helena Maria Barysz et al. MOLECULAR & CELLULAR PROTEOMICS
- Molecular Details Underlying Dynamic Structures and Regulation of the Human 26S Proteasome
- (2017) Xiaorong Wang et al. MOLECULAR & CELLULAR PROTEOMICS
- Capturing protein communities by structural proteomics in a thermophilic eukaryote
- (2017) Panagiotis L Kastritis et al. Molecular Systems Biology
- The role of interfacial lipids in stabilizing membrane protein oligomers
- (2017) Kallol Gupta et al. NATURE
- compleXView: a server for the interpretation of protein abundance and connectivity information to identify protein complexes
- (2017) Victor Solis-Mezarino et al. NUCLEIC ACIDS RESEARCH
- Mitochondrial protein interactome elucidated by chemical cross-linking mass spectrometry
- (2017) Devin K. Schweppe et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Combining affinity enrichment, cross-linking with photo amino acids, and mass spectrometry for probing protein kinase D2 interactions
- (2017) Björn Häupl et al. PROTEOMICS
- Optimized fragmentation schemes and data analysis strategies for proteome-wide cross-link identification
- (2017) Fan Liu et al. Nature Communications
- Divide and conquer: cleavable cross-linkers to study protein conformation and protein–protein interactions
- (2016) Andrea Sinz ANALYTICAL AND BIOANALYTICAL CHEMISTRY
- Optimized Fragmentation Regime for Diazirine Photo-Cross-Linked Peptides
- (2016) Sven H. Giese et al. ANALYTICAL CHEMISTRY
- Developing a Multiplexed Quantitative Cross-Linking Mass Spectrometry Platform for Comparative Structural Analysis of Protein Complexes
- (2016) Clinton Yu et al. ANALYTICAL CHEMISTRY
- Differential Tandem Mass Spectrometry-Based Cross-Linker: A New Approach for High Confidence in Identifying Protein Cross-Linking
- (2016) Jayanta K. Chakrabarty et al. ANALYTICAL CHEMISTRY
- Xilmass: A New Approach toward the Identification of Cross-Linked Peptides
- (2016) Şule Yılmaz et al. ANALYTICAL CHEMISTRY
- An Integrated Mass Spectrometry Based Approach to Probe the Structure of the Full-Length Wild-Type Tetrameric p53 Tumor Suppressor
- (2016) Christian Arlt et al. ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
- Advances in protein complex analysis by chemical cross-linking coupled with mass spectrometry (CXMS) and bioinformatics
- (2016) Bao Quoc Tran et al. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
- Dynamic Protein Interaction Networks and New Structural Paradigms in Signaling
- (2016) Veronika Csizmok et al. CHEMICAL REVIEWS
- Mass spectrometry guided structural biology
- (2016) Idlir Liko et al. CURRENT OPINION IN STRUCTURAL BIOLOGY
- p53 Proteoforms and Intrinsic Disorder: An Illustration of the Protein Structure–Function Continuum Concept
- (2016) Vladimir Uversky INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
- The HADDOCK2.2 Web Server: User-Friendly Integrative Modeling of Biomolecular Complexes
- (2016) G.C.P. van Zundert et al. JOURNAL OF MOLECULAR BIOLOGY
- ProXL (Protein Cross-Linking Database): A Platform for Analysis, Visualization, and Sharing of Protein Cross-Linking Mass Spectrometry Data
- (2016) Michael Riffle et al. JOURNAL OF PROTEOME RESEARCH
- Large-Scale and Targeted Quantitative Cross-Linking MS Using Isotope-Labeled Protein Interaction Reporter (PIR) Cross-Linkers
- (2016) Xuefei Zhong et al. JOURNAL OF PROTEOME RESEARCH
- Are Charge-State Distributions a Reliable Tool Describing Molecular Ensembles of Intrinsically Disordered Proteins by Native MS?
- (2016) Antonino Natalello et al. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
- The Evolving Contribution of Mass Spectrometry to Integrative Structural Biology
- (2016) Marco Faini et al. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
- High Sensitivity Crosslink Detection Coupled With Integrative Structure Modeling in the Mass Spec Studio
- (2016) Vladimir Sarpe et al. MOLECULAR & CELLULAR PROTEOMICS
- A General Method for Targeted Quantitative Cross-Linking Mass Spectrometry
- (2016) Juan D. Chavez et al. PLoS One
- Modeling protein-protein and protein-peptide complexes: CAPRI 6th edition
- (2016) Marc F. Lensink et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- Molecular architecture of the inner ring scaffold of the human nuclear pore complex
- (2016) J. Kosinski et al. SCIENCE
- Crosslinking and Mass Spectrometry: An Integrated Technology to Understand the Structure and Function of Molecular Machines
- (2016) Alexander Leitner et al. TRENDS IN BIOCHEMICAL SCIENCES
- In vivo protein interaction network analysis reveals porin-localized antibiotic inactivation in Acinetobacter baumannii strain AB5075
- (2016) Xia Wu et al. Nature Communications
- A Novel Bio-Orthogonal Cross-Linker for Improved Protein/Protein Interaction Analysis
- (2015) Catherine Nury et al. ANALYTICAL CHEMISTRY
- In Cell Footprinting Coupled with Mass Spectrometry for the Structural Analysis of Proteins in Live Cells
- (2015) Jessica A. Espino et al. ANALYTICAL CHEMISTRY
- Interrogating the architecture of protein assemblies and protein interaction networks by cross-linking mass spectrometry
- (2015) Fan Liu et al. CURRENT OPINION IN STRUCTURAL BIOLOGY
- A practical guide to small angle X-ray scattering (SAXS) of flexible and intrinsically disordered proteins
- (2015) Alexey G. Kikhney et al. FEBS LETTERS
- Updates to the Integrated Protein–Protein Interaction Benchmarks: Docking Benchmark Version 5 and Affinity Benchmark Version 2
- (2015) Thom Vreven et al. JOURNAL OF MOLECULAR BIOLOGY
- Kojak: Efficient Analysis of Chemically Cross-Linked Protein Complexes
- (2015) Michael R. Hoopmann et al. JOURNAL OF PROTEOME RESEARCH
- SIM-XL: A powerful and user-friendly tool for peptide cross-linking analysis
- (2015) Diogo B. Lima et al. Journal of Proteomics
- Xlink Analyzer: Software for analysis and visualization of cross-linking data in the context of three-dimensional structures
- (2015) Jan Kosinski et al. JOURNAL OF STRUCTURAL BIOLOGY
- Proteome-wide profiling of protein assemblies by cross-linking mass spectrometry
- (2015) Fan Liu et al. NATURE METHODS
- Intrinsically disordered proteins in cellular signalling and regulation
- (2015) Peter E. Wright et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- xVis: a web server for the schematic visualization and interpretation of crosslink-derived spatial restraints
- (2015) Maximilian Grimm et al. NUCLEIC ACIDS RESEARCH
- Synthesis of two new enrichable and MS-cleavable cross-linkers to define protein–protein interactions by mass spectrometry
- (2015) Anthony M. Burke et al. ORGANIC & BIOMOLECULAR CHEMISTRY
- Chemical cross-linking and native mass spectrometry: A fruitful combination for structural biology
- (2015) Andrea Sinz et al. PROTEIN SCIENCE
- Structure of full-length p53 tumor suppressor probed by chemical cross-linking and mass spectrometry
- (2015) Christian Arlt et al. PROTEOMICS
- Probing the Protein Interaction Network of Pseudomonas aeruginosa Cells by Chemical Cross-Linking Mass Spectrometry
- (2015) Arti T. Navare et al. STRUCTURE
- Quantitative interactome analysis reveals a chemoresistant edgotype
- (2015) Juan D. Chavez et al. Nature Communications
- CuAAC: An Efficient Click Chemistry Reaction on Solid Phase
- (2015) Vida Castro et al. ACS Combinatorial Science
- A Mass-Spectrometry-Based Framework To Define the Extent of Disorder in Proteins
- (2014) Rebecca Beveridge et al. ANALYTICAL CHEMISTRY
- Intrinsically Disordered Proteins and Intrinsically Disordered Protein Regions
- (2014) Christopher J. Oldfield et al. Annual Review of Biochemistry
- Exceptionally abundant exceptions: comprehensive characterization of intrinsic disorder in all domains of life
- (2014) Zhenling Peng et al. CELLULAR AND MOLECULAR LIFE SCIENCES
- Physicochemical Properties of Cells and Their Effects on Intrinsically Disordered Proteins (IDPs)
- (2014) Francois-Xavier Theillet et al. CHEMICAL REVIEWS
- Automated Assignment of MS/MS Cleavable Cross-Links in Protein 3D-Structure Analysis
- (2014) Michael Götze et al. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
- A Newin VivoCross-linking Mass Spectrometry Platform to Define Protein–Protein Interactions in Living Cells
- (2014) Robyn M. Kaake et al. MOLECULAR & CELLULAR PROTEOMICS
- Structural Model of a CRISPR RNA-Silencing Complex Reveals the RNA-Target Cleavage Activity in Cmr4
- (2014) Christian Benda et al. MOLECULAR CELL
- Chemical cross-linking/mass spectrometry targeting acidic residues in proteins and protein complexes
- (2014) Alexander Leitner et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Distance restraints from crosslinking mass spectrometry: Mining a molecular dynamics simulation database to evaluate lysine-lysine distances
- (2014) Eric D. Merkley et al. PROTEIN SCIENCE
- Protein Flexibility Facilitates Quaternary Structure Assembly and Evolution
- (2014) Joseph A. Marsh et al. PLOS BIOLOGY
- Integrated Structural Analysis of the Human Nuclear Pore Complex Scaffold
- (2013) Khanh Huy Bui et al. CELL
- In Vivo Protein Interaction Network Identified with a Novel Real-Time Cross-Linked Peptide Identification Strategy
- (2013) Chad R. Weisbrod et al. JOURNAL OF PROTEOME RESEARCH
- Quantitative cross-linking/mass spectrometry using isotope-labelled cross-linkers
- (2013) Lutz Fischer et al. Journal of Proteomics
- Matching Cross-linked Peptide Spectra: Only as Good as the Worse Identification
- (2013) Michael J. Trnka et al. MOLECULAR & CELLULAR PROTEOMICS
- Lysine-specific chemical cross-linking of protein complexes and identification of cross-linking sites using LC-MS/MS and the xQuest/xProphet software pipeline
- (2013) Alexander Leitner et al. Nature Protocols
- Solvated protein-protein docking using Kyte-Doolittle-based water preferences
- (2013) Panagiotis L. Kastritis et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- Architecture of an RNA Polymerase II Transcription Pre-Initiation Complex
- (2013) K. Murakami et al. SCIENCE
- Comparative cross-linking and mass spectrometry of an intact F-type ATPase suggest a role for phosphorylation
- (2013) Carla Schmidt et al. Nature Communications
- On the binding affinity of macromolecular interactions: daring to ask why proteins interact
- (2012) P. L. Kastritis et al. Journal of the Royal Society Interface
- Expanding the Chemical Cross-Linking Toolbox by the Use of Multiple Proteases and Enrichment by Size Exclusion Chromatography
- (2012) Alexander Leitner et al. MOLECULAR & CELLULAR PROTEOMICS
- False discovery rate estimation for cross-linked peptides identified by mass spectrometry
- (2012) Thomas Walzthoeni et al. NATURE METHODS
- Identification of cross-linked peptides from complex samples
- (2012) Bing Yang et al. NATURE METHODS
- Optimizing the enrichment of cross-linked products for mass spectrometric protein analysis
- (2012) Romy Fritzsche et al. RAPID COMMUNICATIONS IN MASS SPECTROMETRY
- Structural Probing of a Protein Phosphatase 2A Network by Chemical Cross-Linking and Mass Spectrometry
- (2012) F. Herzog et al. SCIENCE
- Xwalk: computing and visualizing distances in cross-linking experiments
- (2011) Abdullah Kahraman et al. BIOINFORMATICS
- CrossWork: Software-assisted identification of cross-linked peptides
- (2011) Morten I. Rasmussen et al. Journal of Proteomics
- Quaternary Diamines as Mass Spectrometry Cleavable Crosslinkers for Protein Interactions
- (2011) Billy Clifford-Nunn et al. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
- StavroX—A Software for Analyzing Crosslinked Products in Protein Interaction Studies
- (2011) Michael Götze et al. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
- Cross-linking Measurements ofIn VivoProtein Complex Topologies
- (2011) Chunxiang Zheng et al. MOLECULAR & CELLULAR PROTEOMICS
- Combinatorial Electrostatic Collision-Induced Dissociative Chemical Cross-linking Reagents for Probing Protein Surface Topology
- (2010) Fan Liu et al. ANALYTICAL CHEMISTRY
- Cleavable Cross-Linker for Protein Structure Analysis: Reliable Identification of Cross-Linking Products by Tandem MS
- (2010) Mathias Q. Müller et al. ANALYTICAL CHEMISTRY
- Cu-free click cycloaddition reactions in chemical biology
- (2010) John C. Jewett et al. CHEMICAL SOCIETY REVIEWS
- Hydrogen exchange mass spectrometry for studying protein structure and dynamics
- (2010) Lars Konermann et al. CHEMICAL SOCIETY REVIEWS
- Architecture of the RNA polymerase II–TFIIF complex revealed by cross-linking and mass spectrometry
- (2010) Zhuo Angel Chen et al. EMBO JOURNAL
- Xlink-Identifier: An Automated Data Analysis Platform for Confident Identifications of Chemically Cross-Linked Peptides Using Tandem Mass Spectrometry
- (2010) Xiuxia Du et al. JOURNAL OF PROTEOME RESEARCH
- How far can we go with structural mass spectrometry of protein complexes?
- (2010) Michal Sharon JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
- Development of a Novel Cross-linking Strategy for Fast and Accurate Identification of Cross-linked Peptides of Protein Complexes
- (2010) Athit Kao et al. MOLECULAR & CELLULAR PROTEOMICS
- Probing Native Protein Structures by Chemical Cross-linking, Mass Spectrometry, and Bioinformatics
- (2010) Alexander Leitner et al. MOLECULAR & CELLULAR PROTEOMICS
- An Isotopically Coded CID-cleavable Biotinylated Cross-linker for Structural Proteomics
- (2010) Evgeniy V. Petrotchenko et al. MOLECULAR & CELLULAR PROTEOMICS
- A new cross-linking strategy: protein interaction reporter (PIR) technology for protein–protein interaction studies
- (2010) Xiaoting Tang et al. Molecular BioSystems
- Fast Photochemical Oxidation of Protein Footprints Faster than Protein Unfolding
- (2009) Brian C. Gau et al. ANALYTICAL CHEMISTRY
- Electrospray-ionization mass spectrometry as a tool for fast screening of protein structural properties
- (2009) Rita Grandori et al. Biotechnology Journal
- Ion mobility mass spectrometry of proteins and proteinassemblies
- (2009) Charlotte Uetrecht et al. CHEMICAL SOCIETY REVIEWS
- Finding Chimeras: a Bioinformatics Strategy for Identification of Cross-linked Peptides
- (2009) Feixia Chu et al. MOLECULAR & CELLULAR PROTEOMICS
- The unfoldomics decade: an update on intrinsically disordered proteins
- (2008) A Keith Dunker et al. BMC GENOMICS
- Utility of formaldehyde cross-linking and mass spectrometry in the study of protein–protein interactions
- (2008) Brent W. Sutherland et al. JOURNAL OF MASS SPECTROMETRY
- Probing protein structure by amino acid-specific covalent labeling and mass spectrometry
- (2008) Vanessa Leah Mendoza et al. MASS SPECTROMETRY REVIEWS
- Native mass spectrometry: a bridge between interactomics and structural biology
- (2008) Albert J R Heck NATURE METHODS
- Identification of cross-linked peptides from large sequence databases
- (2008) Oliver Rinner et al. NATURE METHODS
- Protein–protein interaction and quaternary structure
- (2008) Joël Janin et al. QUARTERLY REVIEWS OF BIOPHYSICS
- Micelles Protect Membrane Complexes from Solution to Vacuum
- (2008) N. P. Barrera et al. SCIENCE
Discover Peeref hubs
Discuss science. Find collaborators. Network.
Join a conversationAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started