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An optofluidic metasurface for lateral flow-through detection of breast cancer biomarker. Biosens Bioelectron 2018; 107:224-229. [PMID: 29475186 DOI: 10.1016/j.bios.2018.02.038] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2017] [Revised: 02/12/2018] [Accepted: 02/14/2018] [Indexed: 11/20/2022]
Abstract
The rapid growth of point-of-care tests demands for biosensors with high sensitivity and small size. This paper demonstrates an optofluidic metasurface that combines silicon-on-insulator (SOI) nanophotonics and nanofluidics to realize a high-performance, lateral flow-through biosensor. The metasurface is made of a periodic array of silicon nanoposts on an SOI substrate, and functionalized with specific receptor molecules. Bonding of a polydimethylsiloxane slab directly onto the surface results in an ultracompact biosensor, where analyte solutions are restricted to flow only in the space between the nanoposts. No flow exists above the nanoposts. This sensor design overcomes the issue with diffusion-limited detection of many other biosensors. The lateral flow-through feature, in conjunction with high-Q resonance modes associated with optical bound states of the metasurface, offers an improved sensitivity to subtle molecule-bonding induced changes in refractive index. The device exhibits a resonance mode around 1550 nm wavelength and provides an index sensitivity of 720 nm/RIU. Biosensing is conducted to detect the epidermal growth factor receptor 2 (ErbB2), a protein biomarker for early-stage breast cancer screening, by monitoring resonance wavelength shifts in response to specific analyte-ligand binding events at the metasurface. The limit of detection of the device is 0.7 ng mL-1 for ErbB2.
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3
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Yefremova Y, Danquah BD, Opuni KF, El-Kased R, Koy C, Glocker MO. Mass spectrometric characterization of protein structures and protein complexes in condensed and gas phase. EUROPEAN JOURNAL OF MASS SPECTROMETRY (CHICHESTER, ENGLAND) 2017; 23:445-459. [PMID: 29183193 DOI: 10.1177/1469066717722256] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Proteins are essential for almost all physiological processes of life. They serve a myriad of functions which are as varied as their unique amino acid sequences and their corresponding three-dimensional structures. To fulfill their tasks, most proteins depend on stable physical associations, in the form of protein complexes that evolved between themselves and other proteins. In solution (condensed phase), proteins and/or protein complexes are in constant energy exchange with the surrounding solvent. Albeit methods to describe in-solution thermodynamic properties of proteins and of protein complexes are well established and broadly applied, they do not provide a broad enough access to life-science experimentalists to study all their proteins' properties at leisure. This leaves great desire to add novel methods to the analytical biochemist's toolbox. The development of electrospray ionization created the opportunity to characterize protein higher order structures and protein complexes rather elegantly by simultaneously lessening the need of sophisticated sample preparation steps. Electrospray mass spectrometry enabled us to translate proteins and protein complexes very efficiently into the gas phase under mild conditions, retaining both, intact protein complexes, and gross protein structures upon phase transition. Moreover, in the environment of the mass spectrometer (gas phase, in vacuo), analyte molecules are free of interactions with surrounding solvent molecules and, therefore, the energy of inter- and intramolecular forces can be studied independently from interference of the solvating environment. Provided that gas phase methods can give information which is relevant for understanding in-solution processes, gas phase protein structure studies and/or investigations on the characterization of protein complexes has rapidly gained more and more attention from the bioanalytical scientific community. Recent reports have shown that electrospray mass spectrometry provides direct access to six prime protein complex properties: stabilities, compositions, binding surfaces (epitopes), disassembly processes, stoichiometries, and thermodynamic parameters.
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Affiliation(s)
- Yelena Yefremova
- 1 Proteome Center Rostock, University of Rostock, Rostock, Germany
| | - Bright D Danquah
- 1 Proteome Center Rostock, University of Rostock, Rostock, Germany
| | | | - Reham El-Kased
- 3 Microbiology and Immunology, Faculty of Pharmacy, The British University in Egypt, Cairo, Egypt
| | - Cornelia Koy
- 1 Proteome Center Rostock, University of Rostock, Rostock, Germany
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Zhao H, Boyd LF, Schuck P. Measuring Protein Interactions by Optical Biosensors. ACTA ACUST UNITED AC 2017; 88:20.2.1-20.2.25. [PMID: 28369667 DOI: 10.1002/cpps.31] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
This unit gives an introduction to the basic techniques of optical biosensing for measuring equilibrium and kinetics of reversible protein interactions. Emphasis is placed on description of robust approaches that will provide reliable results with few assumptions. How to avoid the most commonly encountered problems and artifacts is also discussed. © 2017 by John Wiley & Sons, Inc.
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Affiliation(s)
- Huaying Zhao
- National Institutes of Health, Bethesda, Maryland
| | - Lisa F Boyd
- National Institutes of Health, Bethesda, Maryland
| | - Peter Schuck
- National Institutes of Health, Bethesda, Maryland
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OKAYAMA H. General strategy for understanding intracellular molecular interaction cascades that elicit stimulus-invoked biological processes. PROCEEDINGS OF THE JAPAN ACADEMY. SERIES B, PHYSICAL AND BIOLOGICAL SCIENCES 2016; 92:372-385. [PMID: 27725475 PMCID: PMC5243952 DOI: 10.2183/pjab.92.372] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/29/2016] [Accepted: 08/09/2016] [Indexed: 06/06/2023]
Abstract
Recent advances in biology have been driven by chemical analyses of the substances that form living organisms. Such analyses are extremely powerful as way of learning about the static properties of molecular species, but relatively powerless for understanding their dynamic behaviors even though this dynamism is essential for organisms to perform various biological processes that perpetuate their lives. Thus, attempts to identify individual species and molecular interaction cascades that drive specific responses to external stimuli or environmental changes often fail. Here I propose a general strategy to address this problem. The strategy comprises two key elements: functional manipulation of a given protein molecule coupled with close monitoring of its biological effect, and construction of a knowledge base tailored for conjecture-driven experimentation. The original idea for this strategy co-evolved with and greatly helped a series of studies we recently performed to discover critical signal cascades and cellular components that regulate the cell cycle transition from G1 to S phase.
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Affiliation(s)
- Hiroto OKAYAMA
- Department of Biochemistry and Molecular Biology, Graduate School and Faculty of Medicine, The University of Tokyo, Hongo, Bunkyo-ku, Tokyo, Japan
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Trahey M, Li MJ, Kwon H, Woodahl EL, McClary WD, Atkins WM. Applications of Lipid Nanodiscs for the Study of Membrane Proteins by Surface Plasmon Resonance. ACTA ACUST UNITED AC 2015; 81:29.13.1-29.13.16. [PMID: 26237675 DOI: 10.1002/0471140864.ps2913s81] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Methods for the initial steps of surface plasmon resonance analysis of membrane proteins incorporated in lipid nanodiscs are described. Several types of Biacore sensor chips are available and require distinct strategies to immobilize proteonanodiscs on the chip surface. The procedures for immobilization on three of these chips (NTA, antibody coupled CM5, and L1) are described in this unit and results are demonstrated for a model system with cytochrome P4503A4 (CYP3A4) in nanodiscs binding to a polyclonal anti-CYP3A4 antibody. Advantages and disadvantages of each chip type are considered.
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Affiliation(s)
- Meg Trahey
- Department of Biomedical and Pharmaceutical Sciences, University of Montana, Missoula, Montana.,These authors contributed equally to this work
| | - Mavis Jiarong Li
- Department of Medicinal Chemistry, University of Washington, Seattle Washington.,These authors contributed equally to this work
| | - Hyewon Kwon
- Department of Medicinal Chemistry, University of Washington, Seattle Washington
| | - Erica L Woodahl
- Department of Biomedical and Pharmaceutical Sciences, University of Montana, Missoula, Montana
| | - Wynton D McClary
- Department of Medicinal Chemistry, University of Washington, Seattle Washington
| | - William M Atkins
- Department of Medicinal Chemistry, University of Washington, Seattle Washington
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Abstract
Tissue inhibitor of metalloproteinases-3 (TIMP-3) belongs to a family of proteins that regulate the activity of matrix metalloproteinases (MMPs), which can process various bioactive molecules such as cell surface receptors, chemokines, and cytokines. Glycosaminoglycans (GAGs) interact with a number of proteins, thereby playing an essential role in the regulation of many physiological/patho-physiological processes. Both GAGs and TIMP/MMPs play a major role in many cell biological processes, including cell proliferation, migration, differentiation, angiogenesis, apoptosis, and host defense. In this report, a heparin biosensor was used to map the interaction between TIMP-3 and heparin and other GAGs by surface plasmon resonance spectroscopy. These studies show that TIMP-3 is a heparin-binding protein with an affinity of ~59 nM. Competition surface plasmon resonance analysis indicates that the interaction between TIMP-3 and heparin is chain-length dependent, and N-sulfo and 6-O-sulfo groups (rather than the 2-O-sulfo groups) in heparin are important in the interaction of heparin with TIMP-3. Other GAGs (including chondroitin sulfate (CS) type E (CS-E)and CS type B (CS-B)demonstrated strong binding to TIMP-3, while heparan sulfate (HS), CS type A (CSA), CS type C (CSC), and CS type D (CSD) displayed only weak binding affinity.
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Crow MS, Javitt A, Cristea IM. A proteomics perspective on viral DNA sensors in host defense and viral immune evasion mechanisms. J Mol Biol 2015; 427:1995-2012. [PMID: 25728651 DOI: 10.1016/j.jmb.2015.02.016] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2014] [Revised: 02/11/2015] [Accepted: 02/17/2015] [Indexed: 12/22/2022]
Abstract
The sensing of viral DNA is an essential step of cellular immune response to infections with DNA viruses. These human pathogens are spread worldwide, triggering a wide range of virus-induced diseases, and are associated with high levels of morbidity and mortality. Despite similarities between DNA molecules, mammalian cells have the remarkable ability to distinguish viral DNA from their own DNA. This detection is carried out by specialized antiviral proteins, called DNA sensors. These sensors bind to foreign DNA to activate downstream immune signaling pathways and alert neighboring cells by eliciting the expression of antiviral cytokines. The sensing of viral DNA was shown to occur both in the cytoplasm and in the nucleus of infected cells, disproving the notion that sensing occurred by simple spatial separation of viral and host DNA. A number of omic approaches, in particular, mass-spectrometry-based proteomic methods, have significantly contributed to the constantly evolving field of viral DNA sensing. Here, we review the impact of omic methods on the identification of viral DNA sensors, as well as on the characterization of mechanisms involved in host defense or viral immune evasion.
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Affiliation(s)
- Marni S Crow
- Department of Molecular Biology, Princeton University, Lewis Thomas Laboratory, Washington Road, Princeton, NJ 08544, USA
| | - Aaron Javitt
- Department of Molecular Biology, Princeton University, Lewis Thomas Laboratory, Washington Road, Princeton, NJ 08544, USA
| | - Ileana M Cristea
- Department of Molecular Biology, Princeton University, Lewis Thomas Laboratory, Washington Road, Princeton, NJ 08544, USA.
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Zasedateleva OA, Vasiliskov VA, Surzhikov SA, Sazykin AY, Putlyaeva LV, Schwarz AM, Kuprash DV, Rubina AY, Barsky VE, Zasedatelev AS. UV fluorescence of tryptophan residues effectively measures protein binding to nucleic acid fragments immobilized in gel elements of microarrays. Biotechnol J 2014; 9:1074-80. [DOI: 10.1002/biot.201300556] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/25/2013] [Revised: 05/04/2014] [Accepted: 06/11/2014] [Indexed: 12/13/2022]
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Grell TA, Alabanza AM, Gaskell K, Aslan K. Microwave-accelerated surface modification of plasmonic gold thin films with self-assembled monolayers of alkanethiols. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2013; 29:13209-16. [PMID: 24083414 PMCID: PMC3863588 DOI: 10.1021/la402455x] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
A rapid surface modification technique for the formation of self-assembled monolayers (SAMs) of alkanethiols on gold thin films using microwave heating in <10 min is reported. In this regard, SAMs of two model alkanethiols, 11-mercaptoundecanoic acid (11-MUDA, to generate a hydrophilic surface) and undecanethiol (UDET, a hydrophobic surface), were successfully formed on gold thin films using selective microwave heating in (1) a semicontinuous fashion and (2) a continuous fashion at room temperature (24 h, control experiment, no microwave heating). The formation of SAMs of 11-MUDA and UDET was confirmed by contact angle measurements, Fourier transform infrared (FT-IR) spectroscopy, and X-ray photoelectron spectroscopy (XPS). The contact angles for water on SAMs formed by the selective microwave heating and conventional room temperature incubation technique (24 h) were measured to be similar for 11-MUDA and UDET. FT-IR spectroscopy results confirmed that the internal structures of SAMs prepared using both microwave heating and room temperature were similar. XPS results revealed that the organic and sulfate contaminants found on bare gold thin films were replaced by SAMs after the surface modification process had been conducted using both microwave heating and room temperature.
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Affiliation(s)
- Tsehai A.J. Grell
- Morgan State University, Department of Chemistry, 1700 East Cold Spring Lane, Baltimore, MD, 21251, USA
- Massachusetts Institute of Technology, Department of Chemistry, 77 Massachusetts Ave., Cambridge, MA 02139 USA
| | - Anginelle M. Alabanza
- Morgan State University, Department of Chemistry, 1700 East Cold Spring Lane, Baltimore, MD, 21251, USA
- The College of New Jersey, Department of Chemistry, 2000 Pennington Road, Ewing, NJ, 08628, USA
| | - Karen Gaskell
- University of Maryland, College Park, Surface Analysis Center, College Park, MD, 20742, USA
| | - Kadir Aslan
- Morgan State University, Department of Chemistry, 1700 East Cold Spring Lane, Baltimore, MD, 21251, USA
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Lin TY, Li BR, Tsai ST, Chen CW, Chen CH, Chen YT, Pan CY. Improved silicon nanowire field-effect transistors for fast protein-protein interaction screening. LAB ON A CHIP 2013; 13:676-684. [PMID: 23235921 DOI: 10.1039/c2lc40772h] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Understanding how proteins interact with each other is the basis for studying the biological mechanisms behind various physiological activities. Silicon nanowire field-effect transistors (SiNW-FETs) are sensitive sensors used to detect biomolecular interactions in real-time. However, the majority of the applications that use SiNW-FETs are for known interactions between different molecules. To explore the capability of SiNW-FETs as fast screening devices to identify unknown interacting molecules, we applied mass spectrometry (MS) to analyze molecules reversibly bound to the SiNW-FETs. Calmodulin (CaM) is a Ca(2+)-sensing protein that is ubiquitously expressed in cells and its interaction with target molecules is Ca(2+)-dependent. By modifying the SiNW-FET surface with glutathione, glutathione S-transferase (GST)-tagged CaM binds reversibly to the SiNW-FET. We first verified the Ca(2+)-dependent interaction between GST-CaM and purified troponin I, which is involved in muscle contraction, through the conductance changes of the SiNW-FET. Furthermore, the cell lysate containing overexpressed Ca(2+)/CaM-dependent protein kinase IIα induced a conductance change in the GST-CaM-modified SiNW-FET. The bound proteins were eluted and subsequently identified by MS as CaM and kinase. In another example, candidate proteins from neuronal cell lysates interacting with calneuron I (CalnI), a CaM-like protein, were captured with a GST-CalnI-modified SiNW-FET. The proteins that interacted with CalnI were eluted and verified by MS. The Ca(2+)-dependent interaction between GST-CalnI and one of the candidates, heat shock protein 70, was re-confirmed via the SiNW-FET measurement. Our results demonstrate the effectiveness of combining MS with SiNW-FETs to quickly screen interacting molecules from cell lysates.
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Affiliation(s)
- Ti-Yu Lin
- Institute of Zoology, National Taiwan University, Taipei, Taiwan
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Roth MJ, Maresh EM, Plymire DA, Zhang J, Corbett JR, Robbins R, Patrie SM. Surface preparation strategies for improved parallelization and reproducible MALDI-TOF MS ligand binding assays. ACS APPLIED MATERIALS & INTERFACES 2013; 5:6-10. [PMID: 23249094 DOI: 10.1021/am3024756] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Immunoassays are employed in academia and the healthcare and biotech industries for high-throughput, quantitative screens of biomolecules. We have developed monolayer-based immunoassays for MALDI-TOF MS. To improve parallelization, we adapted the workflow to photolithography-generated arrays. Our work shows Parylene-C coatings provide excellent "solvent pinning" for reagents and biofluids, enabling sensitive MS detection of immobilized components. With a unique MALDI-matrix crystallization technique we show routine interassay RSD <10% at picomolar concentrations and highlight platform compatibility for relative and label-free quantitation applications. Parylene-arrays provide high sample densities and promise screening throughputs exceeding 1000 samples/h with modern liquid-handlers and MALDI-TOF systems.
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13
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Couture M, Zhao SS, Masson JF. Modern surface plasmon resonance for bioanalytics and biophysics. Phys Chem Chem Phys 2013; 15:11190-216. [DOI: 10.1039/c3cp50281c] [Citation(s) in RCA: 133] [Impact Index Per Article: 12.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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Abel B, Aslan K. Surface modification of plasmonic nanostructured materials with thiolated oligonucleotides in 10 seconds using selective microwave heating. ANNALEN DER PHYSIK 2012; 524:741-750. [PMID: 23645933 PMCID: PMC3640794 DOI: 10.1002/andp.201200125] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
This study demonstrates the proof-of-principle of rapid surface modification of plasmonic nanostructured materials with oligonucleotides using low power microwave heating. Due to their interesting optical and electronic properties, silver nanoparticle films (SNFs, 2 nm thick) deposited onto glass slides were used as the model plasmonic nanostructured materials. Rapid surface modification of SNFs with oligonucleotides was carried out using two strategies (1) Strategy 1: for ss-oligonucleotides, surface hybridization and (2) Strategy 2: for ds-oligonucleotides, solution hybridization), where the samples were exposed to 10, 15, 30 and 60 seconds microwave heating. To assess the efficacy of our new rapid surface modification technique, identical experiments carried out without the microwave heating (i.e., conventional method), which requires 24 hours for the completion of the identical steps. It was found that SNFs can be modified with ss- and ds-oligonucleotides in 10 seconds, which typically requires several hours of incubation time for the chemisorption of thiol groups on to the planar metal surface using conventional techniques.
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Affiliation(s)
- Biebele Abel
- Morgan State University, Department of Chemistry, 1700 East Cold Spring Lane, Baltimore, MD 21251 USA
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15
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Becnel LB, McKenna NJ. Minireview: progress and challenges in proteomics data management, sharing, and integration. Mol Endocrinol 2012; 26:1660-74. [PMID: 22902541 DOI: 10.1210/me.2012-1180] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023] Open
Abstract
The proteome represents the identity, expression levels, interacting partners, and posttranslational modifications of proteins expressed within any given cell. Proteomic studies aim to census the quantitative and qualitative factors regulating the biological relationships of proteins acting in concert as functional cellular networks. In the field of endocrinology, proteomics has been of considerable value in determining the function and mechanism of action of endocrine signaling molecules in the cell membrane, cytoplasm, and nucleus and for the discovery of proteins as candidates for clinical biomarkers. The volume of data that can be generated by proteomics methodologies, up to gigabytes of data within a few hours, brings with it its own logistical hurdles and presents significant challenges to realizing the full potential of these datasets. In this minireview, we describe selected current proteomics methodologies and their application in basic and translational endocrinology before focusing on mass spectrometry as a model for current progress and challenges in data analysis, management, sharing, and integration.
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Affiliation(s)
- Lauren B Becnel
- Department of Medicine, Hematology and Oncology, Baylor College of Medicine, 1 Baylor Plaza MS-BCM305, Houston, Texas 77030, USA.
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16
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Shi Q, Yin S, Kaluz S, Ni N, Devi NS, Mun J, Wang D, Damera K, Chen W, Burroughs S, Mooring SR, Goodman MM, Van Meir EG, Wang B, Snyder JP. Binding Model for the Interaction of Anticancer Arylsulfonamides with the p300 Transcription Cofactor. ACS Med Chem Lett 2012; 3:620-5. [PMID: 24936238 DOI: 10.1021/ml300042k] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2012] [Accepted: 06/21/2012] [Indexed: 02/02/2023] Open
Abstract
Hypoxia inducible factors (HIFs) are transcription factors that activate expression of multiple gene products and promote tumor adaptation to a hypoxic environment. To become transcriptionally active, HIFs associate with cofactors p300 or CBP. Previously, we found that arylsulfonamides can antagonize HIF transcription in a bioassay, block the p300/HIF-1α interaction, and exert potent anticancer activity in several animal models. In the present work, KCN1-bead affinity pull down, (14)C-labeled KCN1 binding, and KCN1-surface plasmon resonance measurements provide initial support for a mechanism in which KCN1 can bind to the CH1 domain of p300 and likely prevent the p300/HIF-1α assembly. Using a previously reported NMR structure of the p300/HIF-1α complex, we have identified potential binding sites in the p300-CH1 domain. A two-site binding model coupled with IC50 values has allowed establishment of a modest ROC-based enrichment and creation of a guide for future analogue synthesis.
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Affiliation(s)
- Qi Shi
- Department
of Chemistry, Emory University, Atlanta,
Georgia 30322, United States
| | - Shaoman Yin
- Laboratory of Molecular Neuro-Oncology,
Department of Neurosurgery, Emory University School of Medicine, Atlanta, Georgia 30322, United States
| | - Stefan Kaluz
- Laboratory of Molecular Neuro-Oncology,
Department of Neurosurgery, Emory University School of Medicine, Atlanta, Georgia 30322, United States
- Winship Cancer Institute, Emory University, Atlanta, Georgia 30322, United States
| | - Nanting Ni
- Department of Chemistry and Center
for Diagnostics and Therapeutics, Georgia State University, Atlanta, Georgia 30302-4098, United States
| | - Narra Sarojini Devi
- Laboratory of Molecular Neuro-Oncology,
Department of Neurosurgery, Emory University School of Medicine, Atlanta, Georgia 30322, United States
| | - Jiyoung Mun
- Radiology and Imaging Sciences, Emory University, Atlanta, Georgia 30322, United States
| | - Danzhu Wang
- Department of Chemistry and Center
for Diagnostics and Therapeutics, Georgia State University, Atlanta, Georgia 30302-4098, United States
| | - Krishna Damera
- Department of Chemistry and Center
for Diagnostics and Therapeutics, Georgia State University, Atlanta, Georgia 30302-4098, United States
| | - Weixuan Chen
- Department of Chemistry and Center
for Diagnostics and Therapeutics, Georgia State University, Atlanta, Georgia 30302-4098, United States
| | - Sarah Burroughs
- Department of Chemistry and Center
for Diagnostics and Therapeutics, Georgia State University, Atlanta, Georgia 30302-4098, United States
| | - Suazette Reid Mooring
- Department of Chemistry and Center
for Diagnostics and Therapeutics, Georgia State University, Atlanta, Georgia 30302-4098, United States
| | - Mark M. Goodman
- Department of Hematology and
Medical Oncology, Emory University School of Medicine, Atlanta, Georgia 30322, United States
- Winship Cancer Institute, Emory University, Atlanta, Georgia 30322, United States
- Radiology and Imaging Sciences, Emory University, Atlanta, Georgia 30322, United States
| | - Erwin G. Van Meir
- Laboratory of Molecular Neuro-Oncology,
Department of Neurosurgery, Emory University School of Medicine, Atlanta, Georgia 30322, United States
- Department of Hematology and
Medical Oncology, Emory University School of Medicine, Atlanta, Georgia 30322, United States
- Winship Cancer Institute, Emory University, Atlanta, Georgia 30322, United States
| | - Binghe Wang
- Department of Chemistry and Center
for Diagnostics and Therapeutics, Georgia State University, Atlanta, Georgia 30302-4098, United States
| | - James P. Snyder
- Department
of Chemistry, Emory University, Atlanta,
Georgia 30322, United States
- Emory Institute for Drug Discovery, Emory University, Atlanta, Georgia 30322, United States
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17
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Gonzalez LC. Protein microarrays, biosensors, and cell-based methods for secretome-wide extracellular protein-protein interaction mapping. Methods 2012; 57:448-58. [PMID: 22728035 DOI: 10.1016/j.ymeth.2012.06.004] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2012] [Revised: 06/02/2012] [Accepted: 06/08/2012] [Indexed: 12/15/2022] Open
Abstract
Approximately one quarter of all human genes encode proteins that function in the extracellular space or serve to bridge the extracellular and intracellular environments. Physical associations between these secretome proteins serve to regulate a wide range of biological activities and consequently represent important therapeutic targets. Moreover, some extracellular proteins are targeted by pathogens to allow host access or immune evasion. Despite the importance of extracellular protein-protein interactions, our knowledge in this area has remained sparse. Weak affinities and low abundance have often hindered efforts to identify these interactions using traditional methods such as biochemical purification and cDNA library expression cloning. Moreover, current large-scale protein-protein interaction mapping techniques largely under represent extracellular protein-protein interactions. This review highlights emerging biosensor and protein microarray technology, along with more traditional cell-based techniques, that are compatible with secretome-wide screens for extracellular protein-protein interaction discovery. A combination of these approaches will serve to rapidly expand our knowledge of the extracellular protein-protein interactome.
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Affiliation(s)
- Lino C Gonzalez
- Department of Protein Chemistry, Genentech, 1 DNA Way, South San Francisco, CA 94080, United States.
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18
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Label-free monitoring of apoptosis by surface plasmon resonance detection of morphological changes. Apoptosis 2012; 17:916-25. [DOI: 10.1007/s10495-012-0737-y] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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