47 results on '"Terry Baker"'
Search Results
2. Higher Affinity Antibodies Bind With Lower Hydration and Flexibility in Large Scale Simulations
- Author
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Mabel T. Y. Wong, Sebastian Kelm, Xiaofeng Liu, Richard D. Taylor, Terry Baker, and Jonathan W. Essex
- Subjects
antibody-antigen interactions ,antibody binding ,antibody affinity ,antibody interface hydration ,CDR flexibility ,molecular dynamics ,Immunologic diseases. Allergy ,RC581-607 - Abstract
We have carried out a long-timescale simulation study on crystal structures of nine antibody-antigen pairs, in antigen-bound and antibody-only forms, using molecular dynamics with enhanced sampling and an explicit water model to explore interface conformation and hydration. By combining atomic level simulation and replica exchange to enable full protein flexibility, we find significant numbers of bridging water molecules at the antibody-antigen interface. Additionally, a higher proportion of interactions excluding bulk waters and a lower degree of antigen bound CDR conformational sampling are correlated with higher antibody affinity. The CDR sampling supports enthalpically driven antibody binding, as opposed to entropically driven, in that the difference between antigen bound and unbound conformations do not correlate with affinity. We thus propose that interactions with waters and CDR sampling are aspects of the interface that may moderate antibody-antigen binding, and that explicit hydration and CDR flexibility should be considered to improve antibody affinity prediction and computational design workflows.
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- 2022
- Full Text
- View/download PDF
3. Bimekizumab, a Novel Humanized IgG1 Antibody That Neutralizes Both IL-17A and IL-17F
- Author
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Ralph Adams, Asher Maroof, Terry Baker, Alastair D. G. Lawson, Ruth Oliver, Ross Paveley, Steve Rapecki, Stevan Shaw, Pavan Vajjah, Shauna West, and Meryn Griffiths
- Subjects
anti-IL-17A ,IL-17A ,IL-17F ,monoclonal antibody ,bimekizumab ,dual neutralization ,Immunologic diseases. Allergy ,RC581-607 - Abstract
Interleukin (IL)-17A is a key driver of inflammation and the principal target of anti-IL-17 therapeutic monoclonal antibodies. IL-17A, and its structurally similar family member IL-17F, have been shown to be functionally dysregulated in certain human immune-mediated inflammatory diseases such as psoriasis, psoriatic arthritis, and axial spondyloarthritis. Given the overlapping biology of these two cytokines, we postulated that dual neutralization of IL-17A and IL-17F may provide a greater depth of clinical response in IL-17-mediated diseases than IL-17A inhibition alone. We identified 496.g1, a humanized antibody with strong affinity for IL-17A but poor affinity for IL-17F. Affinity maturation of 496.g1 to 496.g3 greatly enhanced the affinity of the Fab fragment for IL-17F while retaining strong binding to IL-17A. As an IgG1, the affinity for IL-17A and IL-17F was 3.2 pM and 23 pM, respectively. Comparison of 496.g3 IgG1 with the commercially available anti-IL-17A monoclonal antibodies ixekizumab and secukinumab, by surface plasmon resonance and in a human in vitro IL-17A functional assay, showed that 496.g3 and ixekizumab display equivalent affinity for IL-17A, and that both antibodies are markedly more potent than secukinumab. In contrast to ixekizumab and secukinumab, 496.g3 exhibited the unique feature of also being able to neutralize the biological activity of IL-17F. Therefore, antibody 496.g3 was selected for clinical development for its ability to neutralize the biologic function of both IL-17A and IL-17F and was renamed bimekizumab (formerly UCB4940). Early clinical data in patients with psoriasis, in those with psoriatic arthritis, and from the Phase 2 studies in psoriasis, psoriatic arthritis, and ankylosing spondylitis, are encouraging and support the targeted approach of dual neutralization of IL-17A and IL-17F. Taken together, these findings provide the rationale for the continued clinical evaluation of bimekizumab in patients with immune-mediated inflammatory diseases.
- Published
- 2020
- Full Text
- View/download PDF
4. Therapeutic Monoclonal Antibodies for Ebola Virus Infection Derived from Vaccinated Humans
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Pramila Rijal, Sean C. Elias, Samara Rosendo Machado, Julie Xiao, Lisa Schimanski, Victoria O’Dowd, Terry Baker, Emily Barry, Simon C. Mendelsohn, Catherine J. Cherry, Jing Jin, Geneviève M. Labbé, Francesca R. Donnellan, Tommy Rampling, Stuart Dowall, Emma Rayner, Stephen Findlay-Wilson, Miles Carroll, Jia Guo, Xiao-Ning Xu, Kuan-Ying A. Huang, Ayato Takada, Gillian Burgess, David McMillan, Andy Popplewell, Daniel J. Lightwood, Simon J. Draper, and Alain R. Townsend
- Subjects
Biology (General) ,QH301-705.5 - Abstract
Summary: We describe therapeutic monoclonal antibodies isolated from human volunteers vaccinated with recombinant adenovirus expressing Ebola virus glycoprotein (EBOV GP) and boosted with modified vaccinia virus Ankara. Among 82 antibodies isolated from peripheral blood B cells, almost half neutralized GP pseudotyped influenza virus. The antibody response was diverse in gene usage and epitope recognition. Although close to germline in sequence, neutralizing antibodies with binding affinities in the nano- to pico-molar range, similar to “affinity matured” antibodies from convalescent donors, were found. They recognized the mucin-like domain, glycan cap, receptor binding region, and the base of the glycoprotein. A cross-reactive cocktail of four antibodies, targeting the latter three non-overlapping epitopes, given on day 3 of EBOV infection, completely protected guinea pigs. This study highlights the value of experimental vaccine trials as a rich source of therapeutic human monoclonal antibodies. : Most antibodies used for Ebola virus treatment originate from convalescent donors or highly immunized animals. Rijal et al. find that monoclonal antibodies isolated early after vaccination from humans can be powerfully therapeutic, despite the relative immaturity of their sequences. Vaccine trials therefore can provide a valuable source of therapeutic antibodies. Keywords: Ebola virus, human monoclonal antibodies, immunotherapy, therapeutic antibodies, guinea pig model, Ebola virus glycoprotein epitopes, E-S-FLU virus, antibody binding kinetics, affinity maturation
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- 2019
- Full Text
- View/download PDF
5. Hangings and Lynchings in Dallas County, Texas: 1853 to 1920
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Terry Baker
- Published
- 2020
6. Membrane Interactions of α-Synuclein Revealed by Multiscale Molecular Dynamics Simulations, Markov State Models, and NMR
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T. Schwarz, Mark S.P. Sansom, Robert Konrat, Benjamin P. Cossins, Terry Baker, Richard J. K. Taylor, J. Shih, and S.-B. Amos
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Conformational change ,Magnetic Resonance Spectroscopy ,Molecular Dynamics Simulation ,010402 general chemistry ,01 natural sciences ,Oligomer ,Protein Structure, Secondary ,Article ,Cell membrane ,03 medical and health sciences ,chemistry.chemical_compound ,Molecular dynamics ,0103 physical sciences ,medicine ,Materials Chemistry ,Molecule ,Physical and Theoretical Chemistry ,Lipid bilayer ,Cell damage ,Protein secondary structure ,030304 developmental biology ,0303 health sciences ,010304 chemical physics ,Chemistry ,medicine.disease ,0104 chemical sciences ,Surfaces, Coatings and Films ,medicine.anatomical_structure ,Membrane ,Intramolecular force ,Helix ,alpha-Synuclein ,Biophysics ,Protein Binding - Abstract
α-Synuclein (αS) is a presynaptic protein that binds to cell membranes and is linked to Parkinson’s disease (PD). Binding of αS to membranes is a likely first step in the molecular pathophysiology of PD. The αS molecule can adopt multiple conformations, being largely disordered in water, adopting a β-sheet conformation when present in amyloid fibrils, and forming a dynamic multiplicity of α-helical conformations when bound to lipid bilayers and related membrane-mimetic surfaces. Multiscale molecular dynamics simulations in conjunction with nuclear magnetic resonance (NMR) and cross-linking mass spectrometry (XLMS) measurements are used to explore the interactions of αS with an anionic lipid bilayer. The simulations and NMR measurements together reveal a break in the helical structure of the central non-amyloid-β component (NAC) region of αS in the vicinity of residues 65–70, which may facilitate subsequent oligomer formation. Coarse-grained simulations of αS starting from the structure of αS when bound to a detergent micelle reveal the overall pattern of protein contacts to anionic lipid bilayers, while subsequent all-atom simulations provide details of conformational changes upon membrane binding. In particular, simulations and NMR data for liposome-bound αS indicate incipient β-strand formation in the NAC region, which is supported by intramolecular contacts seen via XLMS and simulations. Markov state models based on the all-atom simulations suggest a mechanism of conformational change of membrane-bound αS via a dynamic helix break in the region of residue 65 in the NAC region. The emergent dynamic model of membrane-interacting αS advances our understanding of the mechanism of PD, potentially aiding the design of novel therapeutic approaches.
- Published
- 2021
7. B-cell epitopes: Discontinuity and conformational analysis
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Andrew J. Martin, Saba Ferdous, Terry Baker, Jiye Shi, and Sebastian Kelm
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0301 basic medicine ,Protein Conformation ,Stereochemistry ,Chemistry ,Immunology ,Antibodies ,Epitope ,03 medical and health sciences ,030104 developmental biology ,0302 clinical medicine ,Protein structure ,Discontinuity (geotechnical engineering) ,Native state ,Epitopes, B-Lymphocyte ,B-Cell Epitopes ,Molecular Biology ,Epitope Mapping ,030215 immunology - Abstract
Peptide vaccines have many potential advantages over conventional ones including low cost, lack of need for cold-chain storage, safety and specificity. However, it is well known that approximately 90% of B-cell epitopes (BCEs) are discontinuous in nature making it difficult to mimic them for creating vaccines. In this study, the degree of discontinuity in B-cell epitopes and their conformational nature is examined. The discontinuity of B-cell epitopes is analyzed by defining ‘regions’ (consisting of at least three antibody-contacting residues each separated by ≤3 residues) and small fragments (antibody-contacting residues that do not satisfy the requirements for a region). Secondly, an algorithm has been developed that classifies each region's shape as straight, curved or folded on the basis that straight and folded regions are more likely to retain their native conformation as isolated peptides. We have investigated the structures of 488 B-cell epitopes from which 1282 regions and 1018 fragments have been identified. 90% of epitopes have five or fewer regions and five or fewer fragments with 14% containing only one region and 4% being truly linear (i.e. having one region and no fragments). Of the 1282 regions, 508 are straight in shape, 626 are curved and 148 are folded.
- Published
- 2019
8. Therapeutic Monoclonal Antibodies for Ebola Virus Infection Derived from Vaccinated Humans
- Author
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Terry Baker, Francesca R. Donnellan, Geneviève M. Labbé, Andy Popplewell, Alain Townsend, Daniel John Lightwood, Gillian Burgess, Victoria O’Dowd, David McMillan, Jing Jin, Jia Guo, Pramila Rijal, Julie Xiao, Miles W. Carroll, Samara Rosendo Machado, Xiao-Ning Xu, Sean C. Elias, Simon J. Draper, Tommy Rampling, Catherine J. Cherry, Emma Rayner, Ayato Takada, Stuart D. Dowall, Lisa Schimanski, Stephen-Findlay Wilson, Kuan-Ying A. Huang, Emily Barry, and Simon C Mendelsohn
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0301 basic medicine ,Male ,viruses ,therapeutic antibodies ,medicine.disease_cause ,0601 Biochemistry and Cell Biology ,Antibodies, Viral ,Epitope ,law.invention ,Madin Darby Canine Kidney Cells ,chemistry.chemical_compound ,Ebola virus ,0302 clinical medicine ,AFFINITY MATURATION ,law ,guinea pig model ,PROTECTION ,lcsh:QH301-705.5 ,Cells, Cultured ,biology ,Vaccination ,GLYCOPROTEIN ,NONHUMAN-PRIMATES ,Antibodies, Monoclonal ,Middle Aged ,Ebolavirus ,human monoclonal antibodies ,Recombinant DNA ,Female ,immunotherapy ,Antibody ,MEDIATED NEUTRALIZATION ,Life Sciences & Biomedicine ,Adult ,Adolescent ,medicine.drug_class ,Guinea Pigs ,Monoclonal antibody ,General Biochemistry, Genetics and Molecular Biology ,Virus ,NEUTRALIZING ANTIBODIES ,Affinity maturation ,03 medical and health sciences ,Young Adult ,Dogs ,medicine ,Animals ,Humans ,Ebola Vaccines ,VULNERABILITY ,Science & Technology ,Ebola virus glycoprotein epitopes ,E-S-FLU virus ,Cell Biology ,Hemorrhagic Fever, Ebola ,Virology ,Antibodies, Neutralizing ,antibody binding kinetics ,030104 developmental biology ,HEK293 Cells ,chemistry ,lcsh:Biology (General) ,1116 Medical Physiology ,CELLS ,biology.protein ,Vaccinia ,030217 neurology & neurosurgery ,RESPONSES ,GENERATION - Abstract
Summary: We describe therapeutic monoclonal antibodies isolated from human volunteers vaccinated with recombinant adenovirus expressing Ebola virus glycoprotein (EBOV GP) and boosted with modified vaccinia virus Ankara. Among 82 antibodies isolated from peripheral blood B cells, almost half neutralized GP pseudotyped influenza virus. The antibody response was diverse in gene usage and epitope recognition. Although close to germline in sequence, neutralizing antibodies with binding affinities in the nano- to pico-molar range, similar to “affinity matured” antibodies from convalescent donors, were found. They recognized the mucin-like domain, glycan cap, receptor binding region, and the base of the glycoprotein. A cross-reactive cocktail of four antibodies, targeting the latter three non-overlapping epitopes, given on day 3 of EBOV infection, completely protected guinea pigs. This study highlights the value of experimental vaccine trials as a rich source of therapeutic human monoclonal antibodies. : Most antibodies used for Ebola virus treatment originate from convalescent donors or highly immunized animals. Rijal et al. find that monoclonal antibodies isolated early after vaccination from humans can be powerfully therapeutic, despite the relative immaturity of their sequences. Vaccine trials therefore can provide a valuable source of therapeutic antibodies. Keywords: Ebola virus, human monoclonal antibodies, immunotherapy, therapeutic antibodies, guinea pig model, Ebola virus glycoprotein epitopes, E-S-FLU virus, antibody binding kinetics, affinity maturation
- Published
- 2019
9. Designing stapled peptides to inhibit<scp>protein‐protein</scp>interactions: An analysis of successes in a rapidly changing field
- Author
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Julien Michel, Terry Baker, Marie T. J. Bluntzer, O'connell James Philip, and Alison N. Hulme
- Subjects
crystal structure ,Field (physics) ,analysis ,Chemistry ,design ,Organic Chemistry ,Biophysics ,stapled peptides ,Biochemistry ,Protein–protein interaction ,Biomaterials ,therapeutics - Abstract
Two decades after their discovery, stapled peptide methodologies have evolved to a point where they can be used with confidence to generate therapeutic leads. Research groups across the world are testing innovative methodologies for their design, with dozens of publications released every month. A number of stapled peptide drug candidates have recently entered clinical trials. In this review, we provide an overview of successful methods for their construction, highlight trends in the deposited crystal structures of stapled peptide complexed to their targets and discuss properties that contribute towards improved pharmacological profiles.
- Published
- 2020
10. Bimekizumab, a Novel Humanized IgG1 Antibody That Neutralizes Both IL-17A and IL-17F
- Author
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Terry Baker, Stevan Shaw, Meryn Griffiths, Steve Rapecki, Alastair D. G. Lawson, Ralph Adams, Shauna West, Ruth Oliver, Ross A. Paveley, Pavan Vajjah, and Asher Maroof
- Subjects
lcsh:Immunologic diseases. Allergy ,0301 basic medicine ,medicine.drug_class ,Immunology ,Anti-Inflammatory Agents ,Antibody Affinity ,CHO Cells ,anti-IL-17A ,Antibodies, Monoclonal, Humanized ,Humanized antibody ,Monoclonal antibody ,Models, Biological ,Affinity maturation ,03 medical and health sciences ,Psoriatic arthritis ,Cricetulus ,IL-17F ,0302 clinical medicine ,Antibody Specificity ,Psoriasis ,IL-17A ,medicine ,Animals ,Humans ,Immunology and Allergy ,Computer Simulation ,Spondylitis, Ankylosing ,bimekizumab ,Original Research ,biology ,dual targeting ,Interleukin-17 ,medicine.disease ,Antibodies, Neutralizing ,Macaca fascicularis ,Ixekizumab ,dual neutralization ,030104 developmental biology ,monoclonal antibody ,biology.protein ,Secukinumab ,Antibody ,lcsh:RC581-607 ,030215 immunology - Abstract
Interleukin (IL)-17A is a key driver of inflammation and the principal target of anti-IL-17 therapeutic monoclonal antibodies. IL-17A, and its structurally similar family member IL-17F, have been shown to be functionally dysregulated in certain human immune-mediated inflammatory diseases such as psoriasis, psoriatic arthritis, and axial spondyloarthritis. Given the overlapping biology of these two cytokines, we postulated that dual neutralization of IL-17A and IL-17F may provide a greater depth of clinical response in IL-17-mediated diseases than IL-17A inhibition alone. We identified 496.g1, a humanized antibody with strong affinity for IL-17A but poor affinity for IL-17F. Affinity maturation of 496.g1 to 496.g3 greatly enhanced the affinity of the Fab fragment for IL-17F while retaining strong binding to IL-17A. As an IgG1, the affinity for IL-17A and IL-17F was 3.2 pM and 23 pM, respectively. Comparison of 496.g3 IgG1 with the commercially available anti-IL-17A monoclonal antibodies ixekizumab and secukinumab, by surface plasmon resonance and in a human in vitro IL-17A functional assay, showed that 496.g3 and ixekizumab display equivalent affinity for IL-17A, and that both antibodies are markedly more potent than secukinumab. In contrast to ixekizumab and secukinumab, 496.g3 exhibited the unique feature of also being able to neutralize the biological activity of IL-17F. Therefore, antibody 496.g3 was selected for clinical development for its ability to neutralize the biologic function of both IL-17A and IL-17F and was renamed bimekizumab (formerly UCB4940). Early clinical data in patients with psoriasis, in those with psoriatic arthritis, and from the Phase 2 studies in psoriasis, psoriatic arthritis, and ankylosing spondylitis, are encouraging and support the targeted approach of dual neutralization of IL-17A and IL-17F. Taken together, these findings provide the rationale for the continued clinical evaluation of bimekizumab in patients with immune-mediated inflammatory diseases.
- Published
- 2020
11. Epitope determines efficacy of therapeutic anti-Tau antibodies in a functional assay with human Alzheimer Tau
- Author
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Berni Sweeney, Marta Westwood, Kerry Louise Tyson, David McMillan, Geofrey Odede, Gillian Burgess, Terry Baker, Daniel John Lightwood, Patrick Downey, Georges Mairet-Coello, Rebecca Munro, Martin Citron, Robert G. Griffin, Dale Starkie, Marie-Laetitia Mushikiwabo, Nathalie Pacico, Ruodan Nan, Sophie Jung, Rachel Angers, Jean-Philippe Courade, and Andrew George Popplewell
- Subjects
0301 basic medicine ,Protein Conformation ,Cell ,Tau protein ,tau Proteins ,Transfection ,Antibodies ,Epitope ,Pathology and Forensic Medicine ,Progressive supranuclear palsy ,Epitopes ,Protein Aggregates ,03 medical and health sciences ,Cellular and Molecular Neuroscience ,0302 clinical medicine ,Alzheimer Disease ,mental disorders ,medicine ,Humans ,Original Paper ,biology ,Neurodegeneration ,food and beverages ,Surface Plasmon Resonance ,medicine.disease ,Tau antibody ,Tauopathy ,HEK293 Cells ,030104 developmental biology ,medicine.anatomical_structure ,biology.protein ,Cancer research ,Neurology (clinical) ,Tau ,Antibody ,Alzheimer’s disease ,Epitope Mapping ,030217 neurology & neurosurgery ,Intracellular - Abstract
In Alzheimer’s disease (AD) and other tauopathies, the cytosolic protein Tau misfolds and forms intracellular aggregates which accumulate within the brain leading to neurodegeneration. Clinical progression is tightly linked to the progressive spread of Tau pathology throughout the brain, and several lines of evidence suggest that Tau aggregates or “seeds” may propagate pathology by spreading from cell to cell in a “prion like” manner. Accordingly, blocking the spread of extracellular seeds with an antibody could be a viable therapeutic approach. However, as the structure of Tau seeds is unknown, it is only possible to rationally design therapeutic Tau antibodies by making a priori assumptions. To avoid this, we developed a robust and quantitative cell based assay and employed an unbiased screening approach to identify the antibody with the highest activity against human Tau seeds. The selected antibody (D), directed to the mid-region of Tau (amino acids 235–250), potently blocked the seeding of human AD Tau and was also fully efficacious against seeds from progressive supranuclear palsy. When we compared this antibody with previously described reference antibodies, we were surprised to find that none of these antibodies showed comparable efficacy against human pathological seeds. Our data highlight the difficulty of predicting antibody accessible epitopes on pathological Tau seeds and question the potential efficacy of some of the Tau antibodies that are currently in clinical development. Electronic supplementary material The online version of this article (10.1007/s00401-018-1911-2) contains supplementary material, which is available to authorized users.
- Published
- 2018
12. Extending the half-life of a fab fragment through generation of a humanized anti-human serum albumin Fv domain: An investigation into the correlation between affinity and serum half-life
- Author
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Mark Jairaj, Emma Dave, Ralph Adams, Shauna West, Laura Griffin, Oliver Zaccheo, Sam Philip Heywood, David Paul Humphreys, Tom Ceska, Joanne E. Compson, Alastair Dg. Lawson, and Terry Baker
- Subjects
0301 basic medicine ,Stereochemistry ,Immunology ,Mutant ,Antibody Affinity ,Immunoglobulin Variable Region ,Protein Data Bank (RCSB PDB) ,Serum albumin ,Anti-albumin ,serum half-life ,Immunoglobulin Fab Fragments ,Mice ,03 medical and health sciences ,0302 clinical medicine ,Neonatal Fc receptor ,Report ,medicine ,Animals ,Humans ,Immunology and Allergy ,Serum Albumin ,biology ,Chemistry ,Albumin ,Fab fragment ,Human serum albumin ,Molecular biology ,body regions ,FcRn ,030104 developmental biology ,human serum albumin ,030220 oncology & carcinogenesis ,embryonic structures ,biology.protein ,Antibody ,Half-Life ,medicine.drug - Abstract
We generated an anti-albumin antibody, CA645, to link its Fv domain to an antigen-binding fragment (Fab), thereby extending the serum half-life of the Fab. CA645 was demonstrated to bind human, cynomolgus, and mouse serum albumin with similar affinity (1–7 nM), and to bind human serum albumin (HSA) when it is in complex with common known ligands. Importantly for half-life extension, CA645 binds HSA with similar affinity within the physiologically relevant range of pH 5.0 – pH 7.4, and does not have a deleterious effect on the binding of HSA to neonatal Fc receptor (FcRn). A crystal structure of humanized CA645 Fab in complex with HSA was solved and showed that CA645 Fab binds to domain II of HSA. Superimposition with the crystal structure of FcRn bound to HSA confirmed that CA645 does not block HSA binding to FcRn. In mice, the serum half-life of humanized CA645 Fab is 84.2 h. This is a significant extension in comparison with < 1 h for a non-HSA binding CA645 Fab variant. The Fab-HSA structure was used to design a series of mutants with reduced affinity to investigate the correlation between the affinity for albumin and serum half-life. Reduction in the affinity for MSA by 144-fold from 2.2 nM to 316 nM had no effect on serum half-life. Strikingly, despite a reduction in affinity to 62 µM, an extension in serum half-life of 26.4 h was still obtained. CA645 Fab and the CA645 Fab-HSA complex have been deposited in the Protein Data Bank (PDB) with accession codes, 5FUZ and 5FUO, respectively.
- Published
- 2016
13. Mono-Substituted Hydrocarbon Diastereomer Combinations Reveal Stapled Peptides with High Structural Fidelity
- Author
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Terry Baker, Kristel Sepp, Fergus S. McWhinnie, Charlotte Wilson, Ted R. Hupp, Tilo Kunath, Alison N. Hulme, and Douglas R. Houston
- Subjects
0301 basic medicine ,chemistry.chemical_classification ,Circular dichroism ,Stereochemistry ,Chemistry ,Organic Chemistry ,Protein Data Bank (RCSB PDB) ,Diastereomer ,Peptide ,General Chemistry ,Nuclear magnetic resonance spectroscopy ,Solution structure ,Catalysis ,03 medical and health sciences ,030104 developmental biology ,Stapled peptide ,Helical peptide - Abstract
Modified peptides, such as stapled peptides, which replicate the structure of α-helical protein segments, represent a potential therapeutic advance. However, the 3D solution structure of these stapled peptides is rarely explored beyond the acquisition of circular dichroism (CD) data to quantify bulk peptide helicity; the detailed backbone structure, which underlies this, is typically undefined. Diastereomeric stapled peptides based on helical sections of three proteins (αSyn, Cks1 and CK1α) were generated; their overall helicity was quantified by CD; and the most helical peptide from each series was selected for structural analysis. Solution-phase models for the optimised peptides were generated using NMR-derived restraints and a modified CHARMM22 force field. Comparing these models with PDB structures allowed deviation between the stapled peptides and critical helical regions to be evaluated. These studies demonstrate that CD alone is not sufficient to assess the structural fidelity of a stapled peptide.
- Published
- 2017
14. Discovery of a junctional epitope antibody that stabilizes IL-6 and gp80 protein:protein interaction and modulates its downstream signaling
- Author
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Terry Baker, Prashant Mori, Simon Lumb, Carl Brendan Doyle, David McMillan, Jörg Kinne, Ulrich Wernery, Robert J. Griffin, Laura Griffin, Chiara R. Valenzano, Chris Meier, Ralph Adams, María C. López, Michael E. Wright, Rebecca J. Burnley, Alastair D. G. Lawson, Richard D. Taylor, Stephen Edward Rapecki, Anna Ettorre, and Omar S. Qureshi
- Subjects
STAT3 Transcription Factor ,0301 basic medicine ,Camelus ,CHO Cells ,Antibodies ,Article ,Epitope ,Protein–protein interaction ,03 medical and health sciences ,Cricetulus ,Protein structure ,Animals ,Humans ,Phosphorylation ,Multidisciplinary ,030102 biochemistry & molecular biology ,Interleukin-6 ,Chemistry ,Gene Expression Profiling ,HEK 293 cells ,Receptors, Interleukin-6 ,Protein Structure, Tertiary ,Cell biology ,HEK293 Cells ,030104 developmental biology ,Single-domain antibody ,Epitope mapping ,Signal transduction ,Epitope Mapping ,Signal Transduction - Abstract
Protein:protein interactions are fundamental in living organism homeostasis. Here we introduce VHH6, a junctional epitope antibody capable of specifically recognizing a neo-epitope when two proteins interact, albeit transiently, to form a complex. Orthogonal biophysical techniques have been used to prove the “junctional epitope” nature of VHH6, a camelid single domain antibody recognizing the IL-6–gp80 complex but not the individual components alone. X-ray crystallography, HDX-MS and SPR analysis confirmed that the CDR regions of VHH6 interact simultaneously with IL-6 and gp80, locking the two proteins together. At the cellular level, VHH6 was able to alter the response of endothelial cells to exogenous IL-6, promoting a sustained STAT3 phosphorylation signal, an accumulation of IL-6 in vesicles and an overall pro-inflammatory phenotype supported further by transcriptomic analysis. Junctional epitope antibodies, like VHH6, not only offer new opportunities in screening and structure-aided drug discovery, but could also be exploited as therapeutics to modulate complex protein:protein interactions.
- Published
- 2017
15. Discovery and characterization of olokizumab
- Author
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Alastair D. G. Lawson, Rich Gelinas, Stevan Shaw, Bruce Carrington, Steve Rapecki, Andrew George Popplewell, Ralph Adams, Alistair James Henry, Tim Bourne, Chris Meier, Adrian Moore, Diane Marshall, Terry Baker, and Helen Neale
- Subjects
Models, Molecular ,Olokizumab ,Molecular Sequence Data ,olokizumab ,Immunology ,Regulator ,interleukin 6 ,Antigen-Antibody Complex ,Biology ,Antibodies, Monoclonal, Humanized ,Crystallography, X-Ray ,Humanized antibody ,Immunoglobulin Fab Fragments ,gp130 ,Immune system ,Report ,antibody ,Cytokine Receptor gp130 ,medicine ,Animals ,Humans ,Immunology and Allergy ,Amino Acid Sequence ,structure ,Interleukin 6 ,Autoimmune disease ,IL-6 ,Binding Sites ,Hybridomas ,Sequence Homology, Amino Acid ,Interleukin-6 ,neutralization ,medicine.disease ,Antibodies, Neutralizing ,Arthritis, Experimental ,Rats ,Macaca fascicularis ,site 3 ,Structural biology ,biology.protein ,Cancer research ,Female ,Antibody - Abstract
Interleukin-6 (IL-6) is a critical regulator of the immune system and has been widely implicated in autoimmune disease. Here, we describe the discovery and characterization of olokizumab, a humanized antibody to IL-6. Data from structural biology, cell biology and primate pharmacology demonstrate the therapeutic potential of targeting IL-6 at “Site 3”, blocking the interaction with the signaling co-receptor gp130.
- Published
- 2014
16. Analysis of heavy and light chain sequences of conventional camelid antibodies from Camelus dromedarius and Camelus bactrianus species
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Alastair D. G. Lawson, Terry Baker, James Snowden, Laura Griffin, Ulrich Wernery, and Jörg Kinne
- Subjects
Camelus ,Molecular Sequence Data ,Immunology ,Immunoglobulin Variable Region ,Camelus bactrianus ,CDR length ,CH1 domain ,VHH ,Immunoglobulin light chain ,Antibodies ,Immunoglobulin kappa-Chains ,Camel IgG1 ,Immunoglobulin lambda-Chains ,Species Specificity ,Animals ,Immunology and Allergy ,Amino Acid Sequence ,DNA Primers ,Lambda ,Heavy chain ,B-Lymphocytes ,biology ,Sequence Homology, Amino Acid ,Circulating antibodies ,Sequence Analysis, DNA ,biology.organism_classification ,Molecular biology ,Complementarity Determining Regions ,Oligonucleotide primers ,Immunoglobulin G ,biology.protein ,Immunoglobulin Light Chains ,Antibody ,Immunoglobulin Heavy Chains ,Kappa ,Camelid - Abstract
Camel antibodies have been widely investigated, but work has focused upon the unique heavy chain antibodies found across camelid species. These are homodimers, devoid of light chains and the first constant heavy chain domain. Camelid species also display conventional hetero-tetrameric antibodies with identical pairs of heavy and light chains; in Camelus dromedarius these constitute 25% of circulating antibodies. Few investigations have been made on this subset of antibodies and complete conventional camel IgG sequences have not been reported.Here we study the sequence diversity of functional variable and constant regions observed in 57 conventional heavy, 18 kappa and 35 lambda light chains of C. dromedarius and Camelus bactrianus. We detail sequences of the full kappa and lambda light chain, variable and CH1 region for IgG1a and IgG1b and the CH2 and CH3 region for IgG1a. The majority (60%) of IgG1 variable region sequences aligned with the human IgHV3 family (clan III) and had leader sequences beginning with MELG whereas the remaining sequences aligned with the IgHV4 (clan II) and had leader sequences beginning with MRLL. Distinct differences in CDR length were observed between the two; where CDR1 was typically 5 and 7 residues and CDR2 at 17 and 16 residues, respectively. CDR3 length of IgHV4 (range 11 to 20) was closer to that typical of VHH antibodies than that of IgHV3 (range 3 to 18 residues). Designed oligonucleotide primers have enabled identification of paired heavy and light chains of conventional camel antibodies from individual B cell clones.
- Published
- 2014
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- View/download PDF
17. SAbDab: the structural antibody database
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Guy Georges, Terry Baker, Angelika Fuchs, Charlotte M. Deane, Jiye Shi, Jinwoo Leem, James Dunbar, and Konrad Krawczyk
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Internet ,biology ,Database ,Protein Conformation ,Orientation (computer vision) ,Antibody Affinity ,Life Sciences ,Antibody affinity ,Complementarity determining region ,computer.software_genre ,Complementarity Determining Regions ,Antibodies ,VI. Genomic variation, diseases and drugs ,Protein structure ,Variable domain ,Terminology as Topic ,Genetics ,biology.protein ,Binding Sites, Antibody ,Antibody ,Databases, Protein ,computer - Abstract
Structural antibody database (SAbDab; http://opig.stats.ox.ac.uk/webapps/sabdab) is an online resource containing all the publicly available antibody structures annotated and presented in a consistent fashion. The data are annotated with several properties including experimental information, gene details, correct heavy and light chain pairings, antigen details and, where available, antibody-antigen binding affinity. The user can select structures, according to these attributes as well as structural properties such as complementarity determining region loop conformation and variable domain orientation. Individual structures, datasets and the complete database can be downloaded.
- Published
- 2013
18. Structured programming in a production programming environment.
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F. Terry Baker
- Published
- 1975
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- View/download PDF
19. Organizing for Structured Programming.
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F. Terry Baker
- Published
- 1974
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20. Computational design of an epitope-specific Keap1 binding antibody using hotspot residues grafting and CDR loop swapping
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Terry Baker, Ralph Adams, Shu-Fen Coker, Tom Ceska, Laura Griffin, Jiye Shi, Alastair D. G. Lawson, Richard D. Taylor, and Xiaofeng Liu
- Subjects
0301 basic medicine ,medicine.drug_class ,NF-E2-Related Factor 2 ,In silico ,Antibody Affinity ,Computational biology ,Monoclonal antibody ,Crystallography, X-Ray ,Epitope ,Article ,03 medical and health sciences ,Epitopes ,0302 clinical medicine ,medicine ,Humans ,Computer Simulation ,Amino Acid Sequence ,Multidisciplinary ,Kelch-Like ECH-Associated Protein 1 ,biology ,Chemistry ,Rational design ,Antibodies, Monoclonal ,Antigen binding ,KEAP1 ,Complementarity Determining Regions ,030104 developmental biology ,biology.protein ,Target protein ,Antibody ,030217 neurology & neurosurgery ,Protein Binding - Abstract
Therapeutic and diagnostic applications of monoclonal antibodies often require careful selection of binders that recognize specific epitopes on the target molecule to exert a desired modulation of biological function. Here we present a proof-of-concept application for the rational design of an epitope-specific antibody binding with the target protein Keap1, by grafting pre-defined structural interaction patterns from the native binding partner protein, Nrf2, onto geometrically matched positions of a set of antibody scaffolds. The designed antibodies bind to Keap1 and block the Keap1-Nrf2 interaction in an epitope-specific way. One resulting antibody is further optimised to achieve low-nanomolar binding affinity by in silico redesign of the CDRH3 sequences. An X-ray co-crystal structure of one resulting design reveals that the actual binding orientation and interface with Keap1 is very close to the design model, despite an unexpected CDRH3 tilt and VH/VL interface deviation, which indicates that the modelling precision may be improved by taking into account simultaneous CDR loops conformation and VH/VL orientation optimisation upon antibody sequence change. Our study confirms that, given a pre-existing crystal structure of the target protein-protein interaction, hotspots grafting with CDR loop swapping is an attractive route to the rational design of an antibody targeting a pre-selected epitope.
- Published
- 2016
21. System quality through structured programming.
- Author
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F. Terry Baker
- Published
- 1972
- Full Text
- View/download PDF
22. Conservation of Functional Sites on Interleukin-6 and Implications for Evolution of Signaling Complex Assembly and Therapeutic Intervention
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Bruce Carrington, Nicholas T. Redpath, Terry Baker, Richard J. K. Taylor, Alastair D. G. Lawson, Mark D. Carr, Frederick W. Muskett, Alistair James Henry, and Vaclav Veverka
- Subjects
medicine.medical_treatment ,Sequence alignment ,Biology ,Peptide Mapping ,Biochemistry ,Evolution, Molecular ,Mice ,Transcription (biology) ,Cytokine Receptor gp130 ,medicine ,Animals ,Humans ,Binding site ,Cytokine binding ,Protein Structure, Quaternary ,Molecular Biology ,Ternary complex ,Inflammation ,Genetics ,Binding Sites ,Interleukin-6 ,Cell Biology ,Glycoprotein 130 ,Receptors, Interleukin-6 ,Protein Structure, Tertiary ,Cell biology ,Cytokine ,Structural biology ,Multiprotein Complexes ,Protein Structure and Folding ,Sequence Alignment - Abstract
A number of secreted cytokines, such as interleukin-6 (IL-6), are attractive targets for the treatment of inflammatory diseases. We have determined the solution structure of mouse IL-6 to assess the functional significance of apparent differences in the receptor interaction sites (IL-6Rα and gp130) suggested by the fairly low degree of sequence similarity with human IL-6. Structure-based sequence alignment of mouse IL-6 and human IL-6 revealed surprising differences in the conservation of the two distinct gp130 binding sites (IIa and IIIa), which suggests a primacy for site III-mediated interactions in driving initial assembly of the IL-6/IL-6Rα/gp130 ternary complex. This is further supported by a series of direct binding experiments, which clearly demonstrate a high affinity IL-6/IL-6Rα-gp130 interaction via site III but only weak binding via site II. Collectively, our findings suggest a pathway for the evolution of the hexameric, IL-6/IL-6Rα/gp130 signaling complex and strategies for therapeutic targeting. We propose that the signaling complex originally involved specific interactions between IL-6 and IL-6Rα (site I) and between the D1 domain of gp130 and IL-6/IL-6Rα (site III), with the later inclusion of interactions between the D2 and D3 domains of gp130 and IL-6/IL-6Rα (site II) through serendipity. It seems likely that IL-6 signaling benefited from the evolution of a multipurpose, nonspecific protein interaction surface on gp130, now known as the cytokine binding homology region (site II contact surface), which fortuitously contributes to stabilization of the IL-6/IL-6Rα/gp130 signaling complex.
- Published
- 2012
23. An Integral approach to counselling refugees
- Author
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Merlin (Terry) Baker
- Subjects
Value (ethics) ,Integral theory ,Basic dimension ,Refugee ,General Medicine ,Global citizenship ,Psychology ,Social psychology - Abstract
Refugees seeking to settle in a country other than their own are a fact of life in our global society today. A counsellor faced with supporting a client who is a refugee may be more effective by approaching this work from a point of view that is as inclusive and holistic as possible. This paper presents an approach to counselling refugee clients based on the Integral Theory and Psychology of Ken Wilber and associates, focusing on at least four basic dimensions of human experience. The four dimensions are the subjective and the objective of the individual and the collective, or the ‘I‘, ‘It‘, ‘We‘ and ‘Its‘ realms of reality, as they arise in the client's life. The counsellor is charged with assisting the refugee client to attain healthier functioning in every one of these four dimensions, while giving equal value to each and not privileging any one of them without good reason. It should be noted that, while Integral Theory is in itself not a new therapy, it allows the counsellor to situate anything that a...
- Published
- 2011
24. Improving B-cell epitope prediction and its application to global antibody-antigen docking
- Author
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Konrad Krawczyk, Terry Baker, Jiye Shi, Charlotte M. Deane, and Xiaofeng Liu
- Subjects
Statistics and Probability ,Antigen-Antibody Complex ,Computer science ,Computational biology ,Bioinformatics ,Biochemistry ,Molecular Docking Simulation ,Epitope ,Antigen ,Humans ,Macromolecular docking ,Molecular Biology ,biology ,Original Papers ,Structural Bioinformatics ,Computer Science Applications ,Computational Mathematics ,Computational Theory and Mathematics ,Docking (molecular) ,Test set ,biology.protein ,Epitopes, B-Lymphocyte ,Antibody ,Algorithms ,Software - Abstract
Motivation: Antibodies are currently the most important class of biopharmaceuticals. Development of such antibody-based drugs depends on costly and time-consuming screening campaigns. Computational techniques such as antibody–antigen docking hold the potential to facilitate the screening process by rapidly providing a list of initial poses that approximate the native complex. Results: We have developed a new method to identify the epitope region on the antigen, given the structures of the antibody and the antigen—EpiPred. The method combines conformational matching of the antibody–antigen structures and a specific antibody–antigen score. We have tested the method on both a large non-redundant set of antibody–antigen complexes and on homology models of the antibodies and/or the unbound antigen structure. On a non-redundant test set, our epitope prediction method achieves 44% recall at 14% precision against 23% recall at 14% precision for a background random distribution. We use our epitope predictions to rescore the global docking results of two rigid-body docking algorithms: ZDOCK and ClusPro. In both cases including our epitope, prediction increases the number of near-native poses found among the top decoys. Availability and implementation: Our software is available from http://www.stats.ox.ac.uk/research/proteins/resources. Contact: deane@stats.ox.ac.uk Supplementary information: Supplementary Data are available at Bioinformatics online.
- Published
- 2014
25. Antibody i-Patch prediction of the antibody binding site improves rigid local antibody-antigen docking
- Author
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Konrad Krawczyk, Terry Baker, Charlotte M. Deane, and Jiye Shi
- Subjects
Binding Sites ,biology ,Computational Biology ,Bioengineering ,Computational biology ,Vertebrate immune system ,Biochemistry ,Molecular biology ,Complementarity Determining Regions ,Antibodies ,Hypervariable region ,Affinity maturation ,Molecular Docking Simulation ,Antigen ,Docking (molecular) ,Antibody Binding Site ,biology.protein ,Antibody antigen ,Antibody ,Antigens ,Molecular Biology ,Algorithms ,Biotechnology - Abstract
Antibodies are a class of proteins indispensable for the vertebrate immune system. The general architecture of all antibodies is very similar, but they contain a hypervariable region which allows millions of antibody variants to exist, each of which can bind to different molecules. This binding malleability means that antibodies are an increasingly important category of biopharmaceuticals and biomarkers. We present Antibody i-Patch, a method that annotates the most likely antibody residues to be in contact with the antigen. We show that our predictions correlate with energetic importance and thus we argue that they may be useful in guiding mutations in the artificial affinity maturation process. Using our predictions as constraints for a rigid-body docking algorithm, we are able to obtain high-quality results in minutes. Our annotation method and re-scoring system for docking achieve their predictive power by using antibody-specific statistics. Antibody i-Patch is available from http://www.stats.ox.ac.uk/research/proteins/resources.
- Published
- 2013
26. Lack of active placental transfer of Certolizumab pegol: Pre-clinical and clinical data
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Andrew Nesbitt, Terry Baker, Charlene Porter, Sylvia Armstrong-Fisher, Lara Kevorkian, and Uma Mahadevan
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Oncology ,medicine.medical_specialty ,business.industry ,Internal medicine ,Medicine ,Certolizumab pegol ,Toxicology ,business ,medicine.drug - Published
- 2016
27. Modelling spatially and temporally distributed phenomena: new methods and tools for GRASS GIS
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David P. Gerdes, Irina Kosinovsky, William M. Brown, Terry Baker, Lubos Mitas, and Helena Mitasova
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Chesapeake bay ,Geography, Planning and Development ,Grass gis ,Library and Information Sciences ,computer.software_genre ,Open system (systems theory) ,Multivariate interpolation ,Visualization ,Point data ,Geography ,Dynamic visualization ,General Earth and Planetary Sciences ,Support system ,Data mining ,computer ,ComputingMethodologies_COMPUTERGRAPHICS ,Information Systems - Abstract
The concept of GRASS (Geographic Resources Analysis Support System) as an open system has created a favourable environment for integration of process based modelling and GIS. To support this integration a new generation of tools is being developed in the following areas: (a) interpolation from multidimensional scattered point data, (b) analysis of surfaces and hypersurfaces, (c) modelling of spatial processes and, (d) 3D dynamic visualization. Examples of two applications are given-spatial and temporal modelling of erosion and deposition, and multivariate interpolation and visualization of nitrogen concentrations in the Chesapeake Bay.
- Published
- 1995
28. Globalisation down but not out
- Author
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Self, Terry-Baker
- Subjects
The Banker (Periodical) -- Surveys ,International economic relations -- Surveys ,Banking industry -- Statistics ,Banking, finance and accounting industries ,Business - Abstract
The latest BANKER global survey of banks shows some surprising results Are the dual trends of globalisation and consolidation producing a new diverse breed of truly global financial institutions? Or [...]
- Published
- 2001
29. P049 Investigation into the binding affinity of certolizumab pegol to FcRn and functional consequences for FcRn-mediated transcytosis: comparison to infliximab, adalimumab and etanercept
- Author
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Andrew Nesbitt, Lara Kevorkian, and Terry Baker
- Subjects
Transcytosis ,business.industry ,Gastroenterology ,Adalimumab ,Medicine ,General Medicine ,Pharmacology ,Certolizumab pegol ,business ,Infliximab ,Etanercept ,medicine.drug - Published
- 2014
30. Revenue Recycling and Labour Markets: Effects on Costs of Policies for Sustainability
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Hector Pollitt, Sebastian De-Ramon, and Terry Baker
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Labour economics ,Sustainability ,Economics ,Revenue - Published
- 2009
31. Software management through improved programming technology.
- Author
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F. Terry Baker
- Published
- 1975
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32. The transfection of Jurkat T-leukemic cells by use of pH sensitive immunoliposomes
- Author
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Catherine Fiona Catterall, Christopher Turner, Bruce Carrington, Malcolm N. Jones, Neil Weir, and Terry Baker
- Subjects
Macromolecular Substances ,Population ,Genetic Vectors ,Pharmaceutical Science ,Pronase ,Biology ,DNA condensation ,Transfection ,Jurkat cells ,Antibodies ,Jurkat Cells ,Humans ,Polylysine ,education ,education.field_of_study ,Liposome ,Molecular mass ,Phosphatidylethanolamines ,DNA ,Hydrogen-Ion Concentration ,Molecular biology ,Microscopy, Electron ,Agarose gel electrophoresis ,Liposomes - Abstract
A gene transfer vector has been developed utilising anionic liposomes as a carrier of plasmid DNA (pEGlacZ, 7.6 kb) to transfect CD3+ T lymphocytes (Jurkat cells). The plasmid DNA that contained the Escherichia coli beta-galactosidase reporter gene was condensed using poly-l-lysine of molecular mass 20,700 (PLK99) to form a polyplex which was interacted with several anionic liposome formulations to form lipopolyplexes. The liposome formulations where based on dioleoylphosphatidylethanolamine (DOPE) in combination with cholesterol and dioleoylphosphatidylcholine (DOPC) and oleic acid, or dimyristoylphosphatidylethanolamine (DMPE). For targeting to the Jurkat cells distearoylphosphatidylethanolamine (DSPE) linked to poly (ethylene glycol) molecular mass 2,000 and coupled to anti-CD3 antibody was incorporated. The polyplexes and lipopolyplexes were characterised in terms of size, zeta potential, agarose gel electrophoresis and electron microscopy and the permeability of the lipopolyplexes to liposome-encapsulated glucose was determined. The polyplexes consisted of a mixed population of rod-like structures (53-160 nm long and 23-31 nm diameter) and spheres (18-30 nm diameter). The lipopolyplexes retained a permeability barrier although were more permeable to glucose than their component liposomes. The poly-l-lysine condensing agent was still susceptible to pronase digestion suggesting that the polyplex was associated with the outer surface of the liposome. The lipopolyplexes with lipid composition DOPE/cholesterol/OA/DSPE-PEG2000 anti-CD3+ PLK99-plasmid DNA had significant gene transfer activity, as monitored by beta-galactosidase expression, that depended on the charge ratio of the component polyplex and the lipid/DNA weight ratio. The anti-CD3 antibody, the liposomal lipid and pH sensitivity were essential for transfection activity.
- Published
- 2003
33. Chief Programmer Team
- Author
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F. Terry Baker
- Subjects
business.industry ,Computer science ,media_common.quotation_subject ,Software development ,Structured programming ,Algorithmic program debugging ,Coupling (computer programming) ,Quality (business) ,Software system ,Software engineering ,business ,Programmer ,Productivity ,media_common - Abstract
A Chief Programmer Team is a concept coupling functionally specialized programming organization with the use of software engineering techniques, such as structured programming and top-down development, to produce effective software systems of high quality. The idea originated with Harlan D. Mills, who in 1968 was concerned about the inefficiencies apparent in large-scale software development. He believed that a structured, multi-disciplinary organization using standardized methods and tools could develop systems of higher quality and achieve improved productivity.
- Published
- 2002
34. The regiochemical distribution of positive charges along cholesterol polyamine carbamates plays significant roles in modulating DNA binding affinity and lipofection
- Author
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Ian S. Blagbrough, Terry Baker, Michael Anthony William Eaton, Andrew J. Geall, and Catherine Fiona Catterall
- Subjects
Biophysics ,CHO Cells ,DNA condensation ,Transfection ,Biochemistry ,chemistry.chemical_compound ,Molecular recognition ,Structural Biology ,Cholesterol polyamine carbamate ,Cricetinae ,Genetics ,Electrochemistry ,Polyamines ,Moiety ,Animals ,DNA binding affinity ,Ammonium ,Molecular Biology ,Chinese hamster ovary cell ,Cell Biology ,DNA ,DNA uptake efficiency ,Cationic lipid ,Cholesterol ,chemistry ,Cattle ,Lipopolyamine ,Lipoplex ,Polyamine ,Ethidium bromide - Abstract
We have quantified the effects of the regiochemical distribution of positive charges along the polyamine moiety in lipopolyamines for DNA molecular recognition. High affinity binding leads to charge neutralisation, DNA condensation and ultimately to lipofection. Binding affinities for calf thymus DNA were determined using an ethidium bromide displacement assay and condensation was detected by changes in turbidity using light scattering. The in vitro transfection competence of cholesterol polyamine carbamates was measured in CHO cells. In the design of DNA condensing and transfecting agents for non-viral gene therapy, the interrelationship of ammonium ions, not just their number, must be considered.
- Published
- 1999
35. Comparison of the biological properties of two anti-mucin-1 antibodies prepared for imaging and therapy
- Author
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Geoffrey A. Pietersz, Daniel H. Wreschner, Li Wenjun, Terry Baker, Ian F. C. McKenzie, and Kenia G. Krauer
- Subjects
Cancer Research ,medicine.drug_class ,media_common.quotation_subject ,Immunology ,Peptide ,Biology ,Monoclonal antibody ,Epitope ,Iodine Radioisotopes ,Epitopes ,Mice ,In vivo ,medicine ,Image Processing, Computer-Assisted ,Immunology and Allergy ,Animals ,Tissue Distribution ,Antigens ,Internalization ,MUC1 ,media_common ,chemistry.chemical_classification ,Mice, Inbred BALB C ,Mucin ,Mucin-1 ,Temperature ,Antibodies, Monoclonal ,3T3 Cells ,Molecular biology ,Kinetics ,Oncology ,chemistry ,biology.protein ,Antibody - Abstract
A comparison was made between the murine anti-MUC1 antibody BC2 (which reacts with the peptide epitope APDTR) and the "humanised" antibody hCTMO1 from CellTech, which reacts with the MUC1 epitope RPAP. Preliminary studies demonstrated that hCTMO1 was a "good" antibody whereas BC2 was not. Various parameters were determined and conclusions reached. (a) Affinity: the affinity of hCTMO1 was 2.60 x 10(7) M(-1) and that of BC2 was 1.36 x 10(7) M(-1); we did not consider these numbers to be substantially different, although hCTMO1 was clearly of higher affinity than BC2. (b) On/off rate at 4 degrees C: both antibodies bound effectively to the MUC-1 transfectant MOR5-CF2; the association rate for hCTMO1 was 3.8 times that of BC2 and the dissociation rate for BC2 was twice as fast as that of hCTMO1. (c) On/off rates at 37 degrees C: at 37 degrees C the association rate for hCTMO1 was greater than that of BC2. (d) Internalization: hCTMO1 was also more efficient at internalising bound antibody; 70% of bound hCTMO1 was internalised, whilst 6% of bound BC2 was internalised. From these studies it was clear that, while hCTMO1 was of similar affinity to BC2, the faster uptake and internalisation and lower off rate indicated that it was likely to be a superior antibody; this was proven in vivo. (e) Localisation: hCTMO1 bound much better in vivo than BC2 (68% compared to 28%). (f) Therapeutic experiments: BC2-idarubicin conjugates were essentially ineffective in eradicating tumours in mice whereas hCTMO1-idarubicin had a dramatic effect on breast cancer tumour cells growing in mice. We conclude that the simple measurements on/off rates and internalisation at 37 degrees C are the most important parameters to use to determine antibody effectiveness, prior to embarking on clinical studies.
- Published
- 1997
36. FRI0162 Investigation into the binding affinity of certolizumab pegol to fcrn and functional consequences for fcrn-mediated transcytosis: comparison to infliximab, adalimumab and etanercept
- Author
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Terry Baker, Lara Kevorkian, and Andrew Nesbitt
- Subjects
biology ,medicine.drug_class ,business.industry ,Immunology ,Pharmacology ,Monoclonal antibody ,Fusion protein ,General Biochemistry, Genetics and Molecular Biology ,Neonatal Fc receptor ,Rheumatology ,Transcytosis ,Biotinylation ,medicine ,biology.protein ,Immunology and Allergy ,Certolizumab pegol ,Antibody ,business ,Receptor ,medicine.drug - Abstract
Background Certolizumab pegol (CZP) is a PEGylated, Fc-free anti-TNF that lacks the Fc portion found in monoclonal antibodies. Infliximab (IFX) and adalimumab (ADA) are both antibodies, while etanercept (ETA) is a receptor fusion protein, and all three of these anti-TNFs have an IgG1 Fc. In mothers treated with CZP, it has been reported that lower levels of CZP, compared to ADA or IFX, are transferred to the neonate.[1][1] It has been suggested this transfer differential may be due to the one-way active transport of antibodies across the placenta thought to be mediated by the neonatal Fc receptor (FcRn). However, anti-TNF binding to FcRn, and FcRn-mediated transcytosis across a cell layer, have not been studied. Objectives To quantify binding of the anti-TNFs CZP, IFX, ADA and ETA to FcRn and to measure FcRn-mediated transcytosis of these agents across a cell layer. Methods A Biacore™ assay was used to determine the binding of CZP, ADA and IFX to human FcRn. Anti-TNFs were passed over an FcRn-coated chip for 5 minutes at a range of concentrations from 21-670nM to determine the on-binding rate; a buffer at pH 6.0 was used to allow optimum binding. The off-rate was followed for a further 5 minutes by running buffer alone over the chip. MDCK II cells transfected with human FcRn were used to measure FcRn-mediated transcytosis across a cell layer using a pH 5.9 buffer on the apical side and pH 7.2 on the basolateral side. The anti-TNFs and the control antibody (P146), which possessed a Fc modified to prevent binding to FcRn, were biotinylated to allow visualization. The amount of each anti-TNF transcytosed across the cell layer over 4 hours was measured by MSD assay. Results IFX (132nM) and ADA (225nM) had relatively high binding affinity to FcRn while the binding affinity of ETA to FcRn was approximately 5 to 10-fold lower (1500nM), similar to previously reported results.2 In contrast, CZP did not bind to the FcRn with any measurable affinity. The levels of transcytosis seen with IFX and ADA were 249.6ng/mL and 159.5ng/mL, respectively (mean of 3 experiments), over 4 hours. Transcytosis of ETA (81.3ng/mL) was lower than that of ADA and IFX. In contrast, the level of CZP transcytosis was significantly lower, at 3.2ng/mL, than that observed with the other anti-TNFs tested. The control antibody P146 also showed a low level of transfer at 5.9ng/mL. Since neither the control antibody nor CZP bind to FcRn, the levels detected are probably due to a low level of non-specific leakage across the cell layer. Conclusions This is the first report to quantify the binding of anti-TNFs to FcRn and their FcRn-mediated transcytosis across a cell layer. CZP does not have an Fc and thus did not bind to FcRn. Moreover, no FcRn-mediated CZP transcytosis was detected. In contrast, ADA and IFX had a relatively high binding affinity to FcRn and were actively transcytosed across the cell layer. ETA showed lower binding affinity to FcRn and subsequent transcytosis, compared to IFX and ADA, but FcRn-mediated transport could still be measured. These results explain the previously observed active transport of anti-TNFs across the placenta seen in patients treated with IFX and ADA, whereas only low levels were observed with CZP.1 References 1. Mahadevan U. Clin Gastroenterol Hepatol 2012 [epub ahead of print]; 2. Suzuki T. J Immunol 2010;184(4):1968-1976. Acknowledgements The authors acknowledge Costello Medical Consulting for writing and editorial assistance which was funded by UCB Pharma. Disclosure of Interest T. Baker Employee of: UCB Pharma, L. Kevorkian Employee of: UCB Pharma, A. Nesbitt Shareholder of: UCB Pharma, Employee of: UCB Pharma [1]: #p-6
- Published
- 2013
37. Tu1660 FcRn Binding and FcRn Mediated Transcytosis by Certolizumab Pegol in Comparison With Other Anti-TNFs
- Author
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Terry Baker, Andrew Nesbitt, and Lara Kevorkian
- Subjects
Hepatology ,Transcytosis ,Chemistry ,Gastroenterology ,medicine ,Certolizumab pegol ,Pharmacology ,medicine.drug - Published
- 2013
38. P5-12 セルトリズマブペゴルのヒトFcRnへの親和性およびヒトFcRnを介したトランスサイトーシスの検討
- Author
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Lara Kevorkian, Andrew Nesbitt, Terry Baker, and Tadao Okamoto
- Subjects
Immunology ,Immunology and Allergy ,General Medicine - Published
- 2013
39. Initial experience with a methodology for correct program design (Abstract of presentation).
- Author
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F. Terry Baker
- Published
- 1978
40. LACK OF CLINICAL USEFULNESS OF A POSITIVE LATEX AGGLUTINATION TEST FOR NEISSERIA MENINGITIDIS/ESCHERICHIA COLI ANTIGENS IN THE URINE
- Author
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Terry Baker, Debra Boyer, and Ralph C. Gordon
- Subjects
Microbiology (medical) ,Urine ,Neisseria meningitidis ,medicine.disease_cause ,Microbiology ,Antigen ,Escherichia coli ,medicine ,Humans ,False Positive Reactions ,Child ,Retrospective Studies ,Antigens, Bacterial ,biology ,business.industry ,Infant ,biology.organism_classification ,Enterobacteriaceae ,Latex fixation test ,Meningococcal Infections ,Infectious Diseases ,Child, Preschool ,Pediatrics, Perinatology and Child Health ,Neisseriaceae ,business ,Latex Fixation Tests ,Bacteria - Published
- 1993
41. Dual IL-17A and IL-17F neutralisation by bimekizumab in psoriatic arthritis: evidence from preclinical experiments and a randomised placebo-controlled clinical trial that IL-17F contributes to human chronic tissue inflammation
- Author
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Terry Baker, Serghei Popa, Ash Maroof, Lucian Ionescu, Mark I L Watling, Sophie Glatt, Pavan Vajjah, Pierre Miossec, Dominique Baeten, Stevan Shaw, Meryn Griffiths, Foteini Strimenopoulou, Ruth Oliver, Nataliya Yeremenko, Alastair D. G. Lawson, Clinical Immunology and Rheumatology, and AII - Inflammatory diseases
- Subjects
Adult ,Male ,0301 basic medicine ,medicine.medical_specialty ,medicine.medical_treatment ,Immunology ,Inflammation ,Antibodies, Monoclonal, Humanized ,Placebo ,Proof of Concept Study ,Severity of Illness Index ,Gastroenterology ,General Biochemistry, Genetics and Molecular Biology ,03 medical and health sciences ,Psoriatic arthritis ,0302 clinical medicine ,Double-Blind Method ,Rheumatology ,Psoriasis Area and Severity Index ,Internal medicine ,Humans ,Immunology and Allergy ,Medicine ,autoimmune diseases ,psoriatic arthritis ,030203 arthritis & rheumatology ,business.industry ,Arthritis, Psoriatic ,Interleukin-17 ,Clinical and Epidemiological Research ,Middle Aged ,medicine.disease ,Antibodies, Neutralizing ,cytokines ,3. Good health ,Clinical trial ,Treatment Outcome ,030104 developmental biology ,Cytokine ,Female ,Interleukin 17 ,medicine.symptom ,business - Abstract
ObjectiveInterleukin (IL)-17A has emerged as pivotal in driving tissue pathology in immune-mediated inflammatory diseases. The role of IL-17F, sharing 50% sequence homology and overlapping biological function, remains less clear. We hypothesised that IL-17F, together with IL-17A, contributes to chronic tissue inflammation, and that dual neutralisation may lead to more profound suppression of inflammation than inhibition of IL-17A alone.MethodsPreclinical experiments assessed the role of IL-17A and IL-17F in tissue inflammation using disease-relevant human cells. A placebo-controlled proof-of-concept (PoC) clinical trial randomised patients with psoriatic arthritis (PsA) to bimekizumab (n=39) or placebo (n=14). Safety, pharmacokinetics and clinical efficacy of multiple doses (weeks 0, 3, 6 (240 mg/160 mg/160 mg; 80 mg/40 mg/40 mg; 160 mg/80 mg/80 mg and 560 mg/320 mg/320 mg)) of bimekizumab, a humanised monoclonal IgG1 antibody neutralising both IL-17A and IL-17F, were investigated.ResultsIL-17F induced qualitatively similar inflammatory responses to IL-17A in skin and joint cells. Neutralisation of IL-17A and IL-17F with bimekizumab more effectively suppressed in vitro cytokine responses and neutrophil chemotaxis than inhibition of IL-17A or IL-17F alone. The PoC trial met both prespecified efficacy success criteria and showed rapid, profound responses in both joint and skin (pooled top three doses vs placebo at week 8: American College of Rheumatology 20% response criteria 80.0% vs 16.7% (posterior probability >99%); Psoriasis Area and Severity Index 100% response criteria 86.7% vs 0%), sustained to week 20, without unexpected safety signals.ConclusionsThese data support IL-17F as a key driver of human chronic tissue inflammation and the rationale for dual neutralisation of IL-17A and IL-17F in PsA and related conditions.Trial registration numberNCT02141763; Results.
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42. Certolizumab pegol does not bind the neonatal Fc receptor (FcRn): Consequences for FcRn-mediated in vitro transcytosis and ex vivo human placental transfer
- Author
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Andrew Nesbitt, Bryan Smith, Charlene Porter, Terry Baker, Sylvia Armstrong-Fisher, Tim Kopotsha, and Lara Kevorkian
- Subjects
0301 basic medicine ,medicine.medical_specialty ,Placenta ,Immunology ,Receptors, Fc ,Anti-TNF ,03 medical and health sciences ,Organ Culture Techniques ,0302 clinical medicine ,Neonatal Fc receptor ,Pregnancy ,Certolizumab pegol ,Immunoglobulin transport ,Internal medicine ,Obstetrics and Gynaecology ,medicine ,Adalimumab ,Humans ,Immunology and Allergy ,Placental Circulation ,Cells, Cultured ,030203 arthritis & rheumatology ,Tumor Necrosis Factor-alpha ,business.industry ,Histocompatibility Antigens Class I ,Obstetrics and Gynecology ,Infliximab ,humanities ,030104 developmental biology ,Endocrinology ,medicine.anatomical_structure ,Reproductive Medicine ,Transcytosis ,Fc receptor ,Immunoglobulin G ,Female ,Tumor necrosis factor alpha ,business ,Materno-fetal transfer ,Ex vivo ,Protein Binding ,medicine.drug - Abstract
Antibodies to tumor necrosis factor (anti-TNF) are used to treat inflammatory diseases, which often affect women of childbearing age. The active transfer of these antibodies across the placenta by binding of the Fc-region to the neonatal Fc receptor (FcRn) may result in adverse fetal or neonatal effects. In contrast to other anti-TNFs, certolizumab pegol lacks an Fc-region. The objective of this study was to determine whether the structure of certolizumab pegol limits active placental transfer.Binding affinities of certolizumab pegol, infliximab, adalimumab and etanercept to human FcRn and FcRn-mediated transcytosis were determined using in vitro assays. Human placentas were perfused ex vivo to measure transfer of certolizumab pegol and positive control anti-D IgG from the maternal to fetal circulation.FcRn binding affinity (KD) was 132nM, 225nM and 1500nM for infliximab, adalimumab and etanercept, respectively. There was no measurable certolizumab pegol binding affinity, similar to that of the negative control. FcRn-mediated transcytosis across a cell layer (mean±SD; n=3) was 249.6±25.0 (infliximab), 159.0±20.2 (adalimumab) and 81.3±13.1ng/mL (etanercept). Certolizumab pegol transcytosis (3.2±3.4ng/mL) was less than the negative control antibody (5.9±4.6ng/mL). No measurable transfer of certolizumab pegol from the maternal to the fetal circulation was observed in 5 out of 6 placentas that demonstrated positive-control IgG transport in the ex vivo perfusion model.Together these results support the hypothesis that the unique structure of certolizumab pegol limits its transfer through the placenta to the fetus and may be responsible for previously reported differences in transfer of other anti-TNFs from mother to fetus.
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43. When to Use and How to Specify Glass Pressing
- Author
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Terry Baker
- Abstract
The molding of lens blanks has developed over the years into a highly sophisticated and exacting art.
- Published
- 1982
44. Air Film Systems as Applied to the Manufacture of Heavy Equipment
- Author
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Terry Baker and Shelby Morley
- Subjects
Heavy equipment ,Engineering ,business.industry ,business ,Manufacturing engineering - Published
- 1975
45. Organizing for structured programming
- Author
-
F. Terry Baker
- Subjects
Jackson structured programming ,Symbolic programming ,Procedural programming ,Computer science ,business.industry ,Programming paradigm ,Programming domain ,Software engineering ,business ,Extensible programming ,Inductive programming ,Functional reactive programming - Abstract
A new type of programming methodology, built around structured programming ideas, has been gaining widespread acceptance for production programming. This paper discusses how this methodology has been introduced into a large production programming organization. Finally it analyzes the advantages and disadvantages of each component of the methodology and recommends ways it can be introduced in a conventional programming environment.
- Published
- 1975
46. Humor Collected from a World of Pain
- Author
-
Langston Hughes and Terry Baker
- Published
- 1967
47. Only the Dead Exist Complete
- Author
-
Terry Baker
- Published
- 1967
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