Search results for: Donald F. Hunt

Items from 1 to 20 out of 71 results

article

Transcription factor binding at Ig enhancers is linked to somatic hypermutation targeting

Ravi K. Dinesh, Benjamin Barnhill, Anoj Ilanges, Lizhen Wu, more

European Journal of Immunology > 50 > 3 > 380 - 395

Secondary diversification of the Ig repertoire occurs through somatic hypermutation (SHM), gene conversion (GCV), and class switch recombination (CSR)—three processes that are initiated by activation‐induced cytidine deaminase (AID). AID targets Ig genes at orders of magnitude higher than the rest of the genome, but the basis for this specificity is poorly understood. We have previously demonstrated...

article

Ion-Ion Proton Transfer and Parallel Ion Parking for the Analysis of Mixtures of Intact Proteins on a Modified Orbitrap Mass Analyzer

Scott A. Ugrin, A. Michelle English, John E. P. Syka, Dina L. Bai, more

Journal of The American Society for Mass Spectrometry > 2019 > 30 > 10 > 2163-2173

We have enabled parallel ion parking on a modified Orbitrap Elite™ as a way to control ion-ion proton transfer reactions via selective activation of a range of ions. The result is the concentration of the majority of ion current from multiple charge states of each precursor proteoform into a single charge state, maximizing signal intensity and increasing effective sensitivity compared to conventional...

article

Phosphorylation coexists with O‐GlcNAcylation in a plant virus protein and influences viral infection

Sandra Martínez‐Turiño, José De Jesús Pérez, Marta Hervás, Rosana Navajas, more

Molecular Plant Pathology > 19 > 6 > 1427 - 1443

Phosphorylation and O‐GlcNAcylation are two widespread post‐translational modifications (PTMs), often affecting the same eukaryotic target protein. Plum pox virus (PPV) is a member of the genus Potyvirus which infects a wide range of plant species. O‐GlcNAcylation of the capsid protein (CP) of PPV has been studied extensively, and some evidence of CP phosphorylation has also been reported. Here, we...

article

Front-End Electron Transfer Dissociation Coupled to a 21 Tesla FT-ICR Mass Spectrometer for Intact Protein Sequence Analysis

Chad R. Weisbrod, Nathan K. Kaiser, John E. P. Syka, Lee Early, more

Journal of The American Society for Mass Spectrometry > 2017 > 28 > 9 > 1787-1795

High resolution mass spectrometry is a key technology for in-depth protein characterization. High-field Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) enables high-level interrogation of intact proteins in the most detail to date. However, an appropriate complement of fragmentation technologies must be paired with FTMS to provide comprehensive sequence coverage, as well as...

article

Peptide-binding motifs of two common equine class I MHC molecules in Thoroughbred horses

Tobias Bergmann, Mikaela Lindvall, Erin Moore, Eugene Moore, more

Immunogenetics > 2017 > 69 > 5 > 351-358

Quantitative peptide-binding motifs of MHC class I alleles provide a valuable tool to efficiently identify putative T cell epitopes. Detailed information on equine MHC class I alleles is still very limited, and to date, only a single equine MHC class I allele, Eqca-1*00101 (ELA-A3 haplotype), has been characterized. The present study extends the number of characterized ELA class I specificities in...

article

A Dual Inhibitory Mechanism Sufficient to Maintain Cell-Cycle-Restricted CENP-A Assembly

Ana Stankovic, Lucie Y. Guo, João F. Mata, Dani L. Bodor, more

Molecular Cell > 2017 > 65 > 2 > 231-246

Chromatin featuring the H3 variant CENP-A at the centromere is critical for its mitotic function and epigenetic maintenance. Assembly of centromeric chromatin is restricted to G1 phase through inhibitory action of Cdk1/2 kinases in other phases of the cell cycle. Here, we identify the two key targets sufficient to maintain cell-cycle control of CENP-A assembly. We uncovered a single phosphorylation...

article

31st Annual Meeting and Associated Programs of the Society for Immunotherapy of Cancer (SITC 2016): part two

Casey Ager, Matthew Reilley, Courtney Nicholas, Todd Bartkowiak, more

Journal for ImmunoTherapy of Cancer > 2016 > 4 > 1 > 107-221

article

Characterization of the peptide binding specificity of the HLA class I alleles B38:01 and B39:06

John Sidney, Jennifer Schloss, Carrie Moore, Mikaela Lindvall, more

Immunogenetics > 2016 > 68 > 3 > 231-236

B*38:01 and B*39:06 are present with phenotypic frequencies <2 % in the general population, but are of interest as B*39:06 is the B allele most associated with type 1 diabetes susceptibility and 38:01 is most protective. A previous study derived putative main anchor motifs for both alleles based on peptide elution data. The present study has utilized panels of single amino acid substitution peptide...

article

Developmentally Regulated Post-translational Modification of Nucleoplasmin Controls Histone Sequestration and Deposition

Takashi Onikubo, Joshua J. Nicklay, Li Xing, Christopher Warren, more

Cell Reports > 2015 > 10 > 10 > 1735-1748

Nucleoplasmin (Npm) is an abundant histone chaperone in vertebrate oocytes and embryos. During embryogenesis, regulation of Npm histone binding is critical for its function in storing and releasing maternal histones to establish and maintain the zygotic epigenome. Here, we demonstrate that Xenopus laevis Npm post-translational modifications (PTMs) specific to the oocyte and egg promote either histone...

article

Protein derivatization and sequential ion/ion reactions to enhance sequence coverage produced by electron transfer dissociation mass spectrometry

Lissa C. Anderson, A. Michelle English, Wei-Han Wang, Dina L. Bai, more

International Journal of Mass Spectrometry > 2015 > 377 > C > 617-624

Previously, we described implementation of a front-end ETD (electron transfer dissociation) source for an Orbitrap instrument [1]. This source facilitates multiple fills of the C-trap with product ions from ETD of intact proteins prior to mass analysis. The result is a dramatic enhancement of the observed ion current without the need for time consuming averaging of data from multiple mass measurements...

article

The common equine class I molecule Eqca-1*00101 (ELA-A3.1) is characterized by narrow peptide binding and T cell epitope repertoires

Tobias Bergmann, Carrie Moore, John Sidney, Donald Miller, more

Immunogenetics > 2015 > 67 > 11-12 > 675-689

Here we describe a detailed quantitative peptide-binding motif for the common equine leukocyte antigen (ELA) class I allele Eqca-1*00101, present in roughly 25 % of Thoroughbred horses. We determined a preliminary binding motif by sequencing endogenously bound ligands. Subsequently, a positional scanning combinatorial library (PSCL) was used to further characterize binding specificity and derive a...

article

Peptide Sequence Analysis by Electron Transfer Dissociation Mass Spectrometry: A Web-Based Tutorial

Donald F. Hunt, Jeffrey Shabanowitz, Dina L. Bai

Journal of The American Society for Mass Spectrometry > 2015 > 26 > 7 > 1256-1258

We created a web-based tutorial designed to teach manual interpretation and identification of spectra acquired using electron transfer dissociation (ETD). The tutorial provides an explanation of the ETD fragmentation process with the goal of identifying all of the significant peaks in a spectrum. We discuss determination of the precursor mass and charge state, neutral losses, electron transfer without...

article

Phosphorylation and arginine methylation mark histone H2A prior to deposition during Xenopus laevis development

Wei-Lin Wang, Lissa C Anderson, Joshua J Nicklay, Hongshan Chen, more

Epigenetics & Chromatin > 2014 > 7 > 1 > 1-20

Background Stored, soluble histones in eggs are essential for early development, in particular during the maternally controlled early cell cycles in the absence of transcription. Histone post-translational modifications (PTMs) direct and regulate chromatin-templated transactions, so understanding the nature and function of pre-deposition maternal histones is essential to deciphering mechanisms...

article

O-GlcNAc modification of the coat protein of the potyvirus Plum pox virus enhances viral infection

José de Jesús Pérez, Namrata D. Udeshi, Jeffrey Shabanowitz, Sergio Ciordia, more

Virology > 2013 > 442 > 2 > 122-131

O-GlcNAcylation is a dynamic protein modification which has been studied mainly in metazoans. We reported previously that an Arabidopsis thaliana O-GlcNAc transferase modifies at least two threonine residues of the Plum pox virus (PPV) capsid protein (CP). Now, six additional residues were shown to be involved in O-GlcNAc modification of PPV CP. CP O-GlcNAcylation was abolished in the PPV CP7-T/A...

article

Peptide-binding motifs associated with MHC molecules common in Chinese rhesus macaques are analogous to those of human HLA supertypes and include HLA-B27-like alleles

Bianca R. Mothé, Scott Southwood, John Sidney, A. Michelle English, more

Immunogenetics > 2013 > 65 > 5 > 371-386

Chinese rhesus macaques are of particular interest in simian immunodeficiency virus/human immunodeficiency virus (SIV/HIV) research as these animals have prolonged kinetics of disease progression to acquired immunodeficiency syndrome (AIDS), compared to their Indian counterparts, suggesting that they may be a better model for HIV. Nevertheless, the specific mechanism(s) accounting for these kinetics...

article

Identification of the peptide-binding motif recognized by the pigtail macaque class I MHC molecule Mane-A1082:01 (Mane A0301)

Carrie Moore, John Sidney, A. Michelle English, Amanda Wriston, more

Immunogenetics > 2012 > 64 > 6 > 461-468

Rhesus and pigtail macaques have proven to be valuable animal models for several important human diseases, including HIV, where they exhibit similar pathology and disease progression. Because rhesus macaques have been extensively characterized in terms of their major histocompatibility complex (MHC) class I alleles, their demand has soared, making them increasingly difficult to obtain for research...

article

O-GlcNAcylation of the Plum pox virus capsid protein catalyzed by SECRET AGENT: characterization of O-GlcNAc sites by electron transfer dissociation mass spectrometry

Young-Cheon Kim, Namrata D. Udeshi, Jeremy L. Balsbaugh, Jeffrey Shabanowitz, more

Amino Acids > 2011 > 40 > 3 > 869-876

The capsid protein of Plum pox virus (PPV-CP) is modified with O-linked β-N-acetylglucosamine (O-GlcNAc). In Arabidopsis thaliana this modification is made by an O-GlcNAc transferase named SECRET AGENT (SEC). Modification of PPV-CP by SEC is hypothesized to have a direct role in the infection process, because virus titer and rate of spread are reduced in SEC mutants. Previous studies used deletion...

article

Par3 Controls Epithelial Spindle Orientation by aPKC-Mediated Phosphorylation of Apical Pins

Yi Hao, Quansheng Du, Xinyu Chen, Zhen Zheng, more

Current Biology > 2010 > 20 > 20 > 1809-1818

Formation of epithelial sheets requires that cell division occurs in the plane of the sheet. During mitosis, spindle poles align so the astral microtubules contact the lateral cortex. Confinement of the mammalian Pins protein to the lateral cortex is essential for this process. Defects in signaling through Cdc42 and atypical protein kinase C (aPKC) also cause spindle misorientation. When epithelial...

article

Structural Basis for the Presentation of Tumor-Associated MHC Class II-Restricted Phosphopeptides to CD4+ T Cells

Yili Li, Florence R. Depontieu, John Sidney, Theresa M. Salay, more

Journal of Molecular Biology > 2010 > 399 > 4 > 596-603

Dysregulated protein phosphorylation is a hallmark of malignant transformation. Transformation can generate major histocompatibility complex (MHC)-bound phosphopeptides that are differentially displayed on tumor cells for specific recognition by T cells. To understand how phosphorylation alters the antigenic identity of self-peptides and how MHC class II molecules present phosphopeptides for CD4 ...

article

Identification of a 17β-hydroxysteroid dehydrogenase type 12 pseudogene as the source of a highly restricted BALB/c Meth A tumor rejection peptide

Ronald C. Hendrickson, Vito R. Cicinnati, Andreas Albers, Grzegorz Dworacki, more

Cancer Immunology, Immunotherapy > 2010 > 59 > 1 > 113-124

Mass spectrometric analysis identified the peptide recognized by a cytotoxic T lymphocyte (CTL) specific for the chemically induced BALB/c Meth A sarcoma as derived from a 17β-hydroxysteroid dehydrogenase type 12 (Hsd17b12) pseudogene present in the BALB/c genome, but only expressed in Meth A sarcoma. The sequence of the peptide is TYDKIKTGL and corresponds to Hsd17b12_114–122 with threonine instead...

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PHOSPHORYLATION (3)
T CELL EPITOPE (3)
ANTIGEN (2)
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CRAYFISH (2)
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MHC (2)
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MS/MS (2)
PEPTIDE BINDING (2)
PLUM POX VIRUS (2)
POTYVIRUS (2)
PROCAMBARUS BOUVIERI (2)
PROTEOMICS (2)
SEQUENCE (2)
TOP-DOWN (2)
XENOPUS LAEVIS (1)
ARABIDOPSIS THALIANA (1)
EQUUS CABALLUS (EQCA) (1)
O-GLCNAC (1)
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PLUM POX VIRUS (1)
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AID (1)
AKT (1)
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COAT PROTEIN (1)
CROSSTALK (1)
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CTL (1)
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EGFR (1)
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INFONA - science communication portal

Search results for: Donald F. Hunt

Transcription factor binding at Ig enhancers is linked to somatic hypermutation targeting

Ion-Ion Proton Transfer and Parallel Ion Parking for the Analysis of Mixtures of Intact Proteins on a Modified Orbitrap Mass Analyzer

Phosphorylation coexists with O‐GlcNAcylation in a plant virus protein and influences viral infection

Front-End Electron Transfer Dissociation Coupled to a 21 Tesla FT-ICR Mass Spectrometer for Intact Protein Sequence Analysis

Peptide-binding motifs of two common equine class I MHC molecules in Thoroughbred horses

A Dual Inhibitory Mechanism Sufficient to Maintain Cell-Cycle-Restricted CENP-A Assembly

31st Annual Meeting and Associated Programs of the Society for Immunotherapy of Cancer (SITC 2016): part two

Characterization of the peptide binding specificity of the HLA class I alleles B38:01 and B39:06

Developmentally Regulated Post-translational Modification of Nucleoplasmin Controls Histone Sequestration and Deposition

Protein derivatization and sequential ion/ion reactions to enhance sequence coverage produced by electron transfer dissociation mass spectrometry

The common equine class I molecule Eqca-1*00101 (ELA-A3.1) is characterized by narrow peptide binding and T cell epitope repertoires

Peptide Sequence Analysis by Electron Transfer Dissociation Mass Spectrometry: A Web-Based Tutorial

Phosphorylation and arginine methylation mark histone H2A prior to deposition during Xenopus laevis development

O-GlcNAc modification of the coat protein of the potyvirus Plum pox virus enhances viral infection

Peptide-binding motifs associated with MHC molecules common in Chinese rhesus macaques are analogous to those of human HLA supertypes and include HLA-B27-like alleles

Identification of the peptide-binding motif recognized by the pigtail macaque class I MHC molecule Mane-A1082:01 (Mane A0301)

O-GlcNAcylation of the Plum pox virus capsid protein catalyzed by SECRET AGENT: characterization of O-GlcNAc sites by electron transfer dissociation mass spectrometry

Par3 Controls Epithelial Spindle Orientation by aPKC-Mediated Phosphorylation of Apical Pins

Structural Basis for the Presentation of Tumor-Associated MHC Class II-Restricted Phosphopeptides to CD4+ T Cells

Identification of a 17β-hydroxysteroid dehydrogenase type 12 pseudogene as the source of a highly restricted BALB/c Meth A tumor rejection peptide

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