Ashley M. Buckle

Department of Biochemistry and Molecular Biology, Monash University

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JoVE Journal Publications

ArticleTotal : 1	Year
Publication title Cited by 1	2021

Other Publications

Article	Year
MUSTANG-MR structural sieving server: applications in protein structural analysis and crystallography. PloS one\| PubMed ID: 20386610	2010
CLIMS: crystallography laboratory information management system. Acta crystallographica. Section D, Biological crystallography\| PubMed ID: 15333956	2004
PFD: a database for the investigation of protein folding kinetics and stability. Nucleic acids research\| PubMed ID: 15608196	2005
The high resolution crystal structure of the human tumor suppressor maspin reveals a novel conformational switch in the G-helix. The Journal of biological chemistry\| PubMed ID: 15760906	2005
The 2.1A crystal structure of the far-red fluorescent protein HcRed: inherent conformational flexibility of the chromophore. Journal of molecular biology\| PubMed ID: 15876379	2005
REFOLD: an analytical database of protein refolding methods. Protein expression and purification\| PubMed ID: 16150607	2006
Control of the coagulation system by serpins. Getting by with a little help from glycosaminoglycans. The FEBS journal\| PubMed ID: 16176258	2005
T cell receptor recognition of a 'super-bulged' major histocompatibility complex class I-bound peptide. Nature immunology\| PubMed ID: 16186824	2005
Managing and mining protein crystallization data. Proteins\| PubMed ID: 16287081	2006
The REFOLD database: a tool for the optimization of protein expression and refolding. Nucleic acids research\| PubMed ID: 16381847	2006
An overview of the serpin superfamily. Genome biology\| PubMed ID: 16737556	2006
X-ray crystal structure of MENT: evidence for functional loop-sheet polymers in chromatin condensation. The EMBO journal\| PubMed ID: 16810322	2006
Protein Folding Database (PFD 2.0): an online environment for the International Foldeomics Consortium. Nucleic acids research\| PubMed ID: 17170010	2007
The 1.6 A crystal structure of the catalytic domain of PlyB, a bacteriophage lysin active against Bacillus anthracis. Journal of molecular biology\| PubMed ID: 17182056	2007
GABA production by glutamic acid decarboxylase is regulated by a dynamic catalytic loop. Nature structural & molecular biology\| PubMed ID: 17384644	2007
The N terminus of the serpin, tengpin, functions to trap the metastable native state. EMBO reports\| PubMed ID: 17557112	2007
A common fold mediates vertebrate defense and bacterial attack. Science (New York, N.Y.)\| PubMed ID: 17717151	2007
X-ray crystal structure of the fibrinolysis inhibitor alpha2-antiplasmin. Blood\| PubMed ID: 18063751	2008
COOH-terminal clustering of autoantibody and T-cell determinants on the structure of GAD65 provide insights into the molecular basis of autoreactivity. Diabetes\| PubMed ID: 18184926	2008
A structural basis for loop C-sheet polymerization in serpins. Journal of molecular biology\| PubMed ID: 18234218	2008
The MACPF/CDC family of pore-forming toxins. Cellular microbiology\| PubMed ID: 18564372	2008
Federated repositories of X-ray diffraction images. Acta crystallographica. Section D, Biological crystallography\| PubMed ID: 18566516	2008
Structural basis for the inhibition of the essential Plasmodium falciparum M1 neutral aminopeptidase. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 19196988	2009
Structure of granzyme C reveals an unusual mechanism of protease autoinhibition. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 19299505	2009
Structural biology of the GAD autoantigen. Autoimmunity reviews\| PubMed ID: 19465164	2010
Prodepth: predict residue depth by support vector regression approach from protein sequences only. PloS one\| PubMed ID: 19759917	2009
Structural determinants of GAD antigenicity. Molecular immunology\| PubMed ID: 19783309	2009
Structure of the Plasmodium falciparum M17 aminopeptidase and significance for the design of drugs targeting the neutral exopeptidases. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 20133789	2010
The X-ray crystal structure of Escherichia coli succinic semialdehyde dehydrogenase; structural insights into NADP+/enzyme interactions. PloS one\| PubMed ID: 20174634	2010
MrGrid: a portable grid based molecular replacement pipeline. PloS one\| PubMed ID: 20386612	2010
EGM: encapsulated gene-by-gene matching to identify gene orthologs and homologous segments in genomes. Bioinformatics (Oxford, England)\| PubMed ID: 20581400	2010
Characterisation of peptide microarrays for studying antibody-antigen binding using surface plasmon resonance imagery. PloS one\| PubMed ID: 20730101	2010
PolyQ: a database describing the sequence and domain context of polyglutamine repeats in proteins. Nucleic acids research\| PubMed ID: 21059684	2011
An analysis of the cross-reactivity of autoantibodies to GAD65 and GAD67 in diabetes. PloS one\| PubMed ID: 21494613	2011
Crystallographic and molecular dynamics analysis of loop motions unmasking the peptidoglycan-binding site in stator protein MotB of flagellar motor. PloS one\| PubMed ID: 21533052	2011
Mastering the canonical loop of serine protease inhibitors: enhancing potency by optimising the internal hydrogen bond network. PloS one\| PubMed ID: 21556330	2011
Refolding your protein with a little help from REFOLD. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 21713630	2011
The rate of polyQ-mediated aggregation is dramatically affected by the number and location of surrounding domains. Journal of molecular biology\| PubMed ID: 21945530	2011
Computational methods for studying serpin conformational change and structural plasticity. Methods in enzymology\| PubMed ID: 22078540	2011
Recombinant protein quality evaluation: proposal for a minimal information standard. Standards in genomic sciences\| PubMed ID: 22180821	2011
Epitope flexibility and dynamic footprint revealed by molecular dynamics of a pMHC-TCR complex. PLoS computational biology\| PubMed ID: 22412359	2012
Hybrid approaches to molecular simulation. Current opinion in structural biology\| PubMed ID: 22633678	2012
Conformational properties of the disease-causing Z variant of α1-antitrypsin revealed by theory and experiment. Biophysical journal\| PubMed ID: 22735536	2012
Crystal, solution and in silico structural studies of dihydrodipicolinate synthase from the common grapevine. PloS one\| PubMed ID: 22761676	2012
X-ray crystal structure of the streptococcal specific phage lysin PlyC. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 22807482	2012
Structural characterization of the mechanism through which human glutamic acid decarboxylase auto-activates. Bioscience reports\| PubMed ID: 23126365	2013
Molecular determinants of the substrate specificity of the complement-initiating protease, C1r. The Journal of biological chemistry\| PubMed ID: 23589288	2013
A redundant role of human thyroid peroxidase propeptide for cellular, enzymatic, and immunological activity. Thyroid : official journal of the American Thyroid Association\| PubMed ID: 23668778	2014
Membrane proteins of Pseudoalteromonas tunicata during the transition from planktonic to extracellular matrix-adherent state. Environmental microbiology reports\| PubMed ID: 23761287	2011
Interactive visualization tools for the structural biologist. Journal of applied crystallography\| PubMed ID: 24068844	2013
PLP-dependent enzymes. BioMed research international\| PubMed ID: 24527459	2014
The α-importome of mammalian germ cell maturation provides novel insights for importin biology. FASEB journal : official publication of the Federation of American Societies for Experimental Biology\| PubMed ID: 24790034	2014
Cofactor-dependent conformational heterogeneity of GAD65 and its role in autoimmunity and neurotransmitter homeostasis. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 24927554	2014
Oxidation of an Exposed Methionine Instigates the Aggregation of Glyceraldehyde-3-Phosphate Dehydrogenase. The Journal of biological chemistry\| PubMed ID: 25086035	2014
Operation of the Australian Store.Synchrotron for macromolecular crystallography. Acta crystallographica. Section D, Biological crystallography\| PubMed ID: 25286837	2014
Understanding the structural dynamics of TCR-pMHC complex interactions. Trends in immunology\| PubMed ID: 25466310	2014
Structural and dynamic properties that govern the stability of an engineered fibronectin type III domain. Protein engineering, design & selection : PEDS\| PubMed ID: 25691761	2015
Solution structure of a soluble fragment derived from a membrane protein by shotgun proteolysis. Protein engineering, design & selection : PEDS\| PubMed ID: 25877662	2015
Critical evaluation of in silico methods for prediction of coiled-coil domains in proteins. Briefings in bioinformatics\| PubMed ID: 26177815	2016
Dynamic Motion and Communication in the Streptococcal C1 Phage Lysin, PlyC. PloS one\| PubMed ID: 26470022	2015
Modelling of Thyroid Peroxidase Reveals Insights into Its Enzyme Function and Autoantigenicity. PloS one\| PubMed ID: 26623656	2015
A colostrum trypsin inhibitor gene expressed in the Cape fur seal mammary gland during lactation. Gene\| PubMed ID: 26639991	2016
PolyQ 2.0: an improved version of PolyQ, a database of human polyglutamine proteins. Database : the journal of biological databases and curation\| PubMed ID: 26980520	2016
KinetochoreDB: a comprehensive online resource for the kinetochore and its related proteins. Database : the journal of biological databases and curation\| PubMed ID: 26989151	2016
Consensus protein design. Protein engineering, design & selection : PEDS\| PubMed ID: 27274091	2016
Circumventing the stability-function trade-off in an engineered FN3 domain. Protein engineering, design & selection : PEDS\| PubMed ID: 27578887	2016
The role of protein dynamics in the evolution of new enzyme function. Nature chemical biology\| PubMed ID: 27618189	2016
Smoothing a rugged protein folding landscape by sequence-based redesign. Scientific reports\| PubMed ID: 27667094	2016
Direct and indirect mechanisms of KLK4 inhibition revealed by structure and dynamics. Scientific reports\| PubMed ID: 27767076	2016
Structural reconstruction of protein ancestry. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 28356519	2017
The Pu.1 target gene Zbtb11 regulates neutrophil development through its integrase-like HHCC zinc finger. Nature communications\| PubMed ID: 28382966	2017
REFOLDdb: a new and sustainable gateway to experimental protocols for protein refolding. BMC structural biology\| PubMed ID: 28438161	2017
Generation of AMBER force field parameters for zinc centres of M1 and M17 family aminopeptidases. Journal of biomolecular structure & dynamics\| PubMed ID: 28782419	2018
Laboratory evolution of protein conformational dynamics. Current opinion in structural biology\| PubMed ID: 29120734	2018
Recognition by host nuclear transport proteins drives disorder-to-order transition in Hendra virus V. Scientific reports\| PubMed ID: 29321677	2018
Previously Hidden Dynamics at the TCR-Peptide-MHC Interface Revealed. Journal of immunology (Baltimore, Md. : 1950)\| PubMed ID: 29728507	2018
Substrate Locking Promotes Dimer-Dimer Docking of an Enzyme Antibiotic Target. Structure (London, England : 1993)\| PubMed ID: 29804823	2018
Structural Capacitance in Protein Evolution and Human Diseases. Journal of molecular biology\| PubMed ID: 30111491	2018
Catalytic diversity and cell wall binding repeats in the phage-encoded endolysins. Molecular microbiology\| PubMed ID: 30230642	2018
Mapping the Pathway and Dynamics of Bestatin Inhibition of the Plasmodium falciparum M1 Aminopeptidase PfA-M1. ChemMedChem\| PubMed ID: 30318749	2018
Thyroid Peroxidase as an Autoantigen in Hashimoto's Disease: Structure, Function, and Antigenicity. Hormone and metabolic research = Hormon- und Stoffwechselforschung = Hormones et metabolisme\| PubMed ID: 30360003	2018
Prostate Cancer Risk-Associated Single-Nucleotide Polymorphism Affects Prostate-Specific Antigen Glycosylation and Its Function. Clinical chemistry\| PubMed ID: 30538125	2019
Integrating Experiment and Theory to Understand TCR-pMHC Dynamics. Frontiers in immunology\| PubMed ID: 30581442	2018
Potent, multi-target serine protease inhibition achieved by a simplified β-sheet motif. PloS one\| PubMed ID: 30668585	2019
Reactive centre loop dynamics and serpin specificity. Scientific reports\| PubMed ID: 30846766	2019
Protein engineering: the potential of remote mutations. Biochemical Society transactions\| PubMed ID: 30902926	2019
KLK4 Inhibition by Cyclic and Acyclic Peptides: Structural and Dynamical Insights into Standard-Mechanism Protease Inhibitors. Biochemistry\| PubMed ID: 31058493	2019
Wavelength-Dependent Fluorescent Immunosensors via Incorporation of Polarity Indicators near the Binding Interface of Antibody Fragments. Analytical chemistry\| PubMed ID: 31117403	2019
The Role of Conformational Dynamics in Abacavir-Induced Hypersensitivity Syndrome. Scientific reports\| PubMed ID: 31324847	2019
Crystal structure of the inhibitor-free form of the serine protease kallikrein-4. Acta crystallographica. Section F, Structural biology communications\| PubMed ID: 31397325	2019
Denisovan, modern human and mouse TNFAIP3 alleles tune A20 phosphorylation and immunity. Nature immunology\| PubMed ID: 31534238	2019
Strategies for Increasing Protein Stability. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 31612442	2020
Ribosome Evolution and Structural Capacitance. Frontiers in molecular biosciences\| PubMed ID: 31803754	2019
Structural Studies of Thyroid Peroxidase Show the Monomer Interacting With Autoantibodies in Thyroid Autoimmune Disease. Endocrinology\| PubMed ID: 32022847	2020
Development and Differentiation in Monobodies Based on the Fibronectin Type 3 Domain. Cells\| PubMed ID: 32143310	2020
Intrinsic limitations in mainstream methods of identifying network motifs in biology. BMC bioinformatics\| PubMed ID: 32349657	2020
Conformational diversity facilitates antibody mutation trajectories and discrimination between foreign and self-antigens. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 32855302	2020
Impact of HLA-DR Antigen Binding Cleft Rigidity on T Cell Recognition. International journal of molecular sciences\| PubMed ID: 32992915	2020
Mutational and biophysical robustness in a pre-stabilized monobody. The Journal of biological chemistry\| PubMed ID: 33617878	2021
A Comprehensive Phylogenetic Analysis of the Serpin Superfamily. Molecular biology and evolution\| PubMed ID: 33744972	2021
High avidity drives the interaction between the streptococcal C1 phage endolysin, PlyC, with the cell surface carbohydrates of Group A Streptococcus. Molecular microbiology\| PubMed ID: 33756056	2021