Publications

Publication list

Articles

Preprints

  1. Chan SHS, Waudby CA, Christodoulou J. ChemRxiv. NMR snapshots of nascent chains emerging from the ribosome during biosynthesis.
  2. Waudby CA, Christodoulou J. ChemRxiv. NMR Resolution Enhancement and Homonuclear Decoupling Using Non-Uniform Weighted Sampling.

2024

  1. Streit JO, Bukvin IV, Chan SHS, Bashir S, Woodburn LF, Włodarski T, Figueiredo AM, Jurkeviciute G, Sidhu HK, Hornby CR, Waudby CA, Cabrita LD, Cassaignau AME, Christodoulou J. Nature 633 232-239 (2024). The ribosome lowers the entropic penalty of protein folding.
  2. Guneri D, Alexandrou E, El Omari K, Dvořáková Z, Chikhale RV, Pike DTS, Waudby CA, Morris CJ, Haider S, Parkinson GN, Waller ZAE. Nat Commun 15 7119 (2024). Structural insights into i-motif DNA structures in sequences from the insulin-linked polymorphic region.

2023

  1. Papageorgiou AC, Pospisilova M, Cibulka J, Ashraf R, Waudby CA, Kadeřávek P, Maroz V, Kubicek K, Prokop Z, Krejci L, Tripsianes K. Nat Commun 14 6751 (2023). Recognition and coacervation of G-quadruplexes by a multifunctional disordered region in RECQ4 helicase.
  2. Pavlovic RZ, Finnegan TJ, Metlushko A, Hansen AL, Waudby CA, Wang X, Hoefer N, McComb DW, Pavic A, Plackic N, Novakovic J, Bradic J, Jeremic N, Jakovljevic V, Smit B, Matic S, Alvarez-Saavedra MA, Capo I, Moore CE, Stupp SI, Badjic JD. Chemistry e202303374 (2023). Dynamic and Assembly Characteristics of Deep-Cavity Basket Acting as a Host for Inclusion Complexation of Mitoxantrone in Biotic and Abiotic Systems.
  3. Waudby CA, Alfonso I. J Magn Reson Open 16-17 100102 (2023). An introduction to one- and two-dimensional lineshape analysis of chemically exchanging systems.
  4. Pálmadóttir T, Waudby CA, Bernfur K, Christodoulou J, Linse S, Malmendal A. Int J Mol Sci 24 5191 (2023). Morphology-Dependent Interactions between α-Synuclein Monomers and Fibrils.
  5. Thole JF, Waudby CA, Pielak GJ. J Biol Chem (2023). Disordered proteins mitigate the temperature dependence of site-specific binding free energies.

2022

  1. Waudby CA, Alvarez-Teijeiro S, Ruiz EJ, Suppinger S, Pinotsis N, Brown PR, Behrens A, Christodoulou J, Mylona A. Nat Commun 13 6133 (2022). An intrinsic temporal order of c-JUN N-terminal phosphorylation regulates its activity by orchestrating co-factor recruitment.
  2. Pavlović RZ, Zhiquan L, Finnegan TJ, Waudby CA, Wang X, VWL, Zhu X, Wong CM, Hamby T, Moore CE, Hoefer N, McComb DW, Sevov CS, Badjic JC. Angew Chem Int Ed (2022). Closed Aromatic Tubes - Capsularenes.
  3. Chan SHS, Włodarski T, Streit JO, Cassaignau AME, Woodburn LF, Ahn M, von Sass GJF, Waudby CA, Budisa N, Cabrita LD, Christodoulou J. Nature Chemistry (2022). The ribosome stabilizes partially folded intermediates of a nascent multi-domain protein.
  4. Ahn M, Włodarski T, Mitropoulou A, Chan SHS, Sidhu H, Plessa E, Becker TA, Budisa N, Waudby CA, Beckmann R, Cassaignau AME, Cabrita LD, Christodoulou J. Nat Commun 13 4243 (2022). Modulating co-translational protein folding by rational design and ribosome engineering.
  5. Creutznacher R, Maass T, Dülfer J, Feldmann C, Hartmann V, Lane MS, Knickmann J, Westermann LT, Thiede L, Smith TJ, Uetrecht C, Mallagaray A, Waudby CA, Taube S, Peters T. Commun Biol 5 563 (2022). Distinct dissociation rates of murine and human norovirus P-domain dimers suggest a role of dimer stability in virus-host interactions.

2021

  1. Deckert A, Cassaignau AME, Wang X, Włodarski T, Chan SHS, Waudby CA, Kirkpatrick J, Vendruscolo M, Cabrita LD, Christodoulou J. Proc Natl Acad Sci U S A 118 e2103015118 (2021). Common sequence motifs of nascent chains engage the ribosome surface and trigger factor.
  2. Plessa E, Chu LP, Chan SHS, Thomas OL, Cassaignau AME, Waudby CA, Christodoulou J, Cabrita LD. Nat Commun 12 6447 (2021). Nascent chains can form co-translational folding intermediates that promote post-translational folding outcomes in a disease-causing protein.
  3. Cassaignau AME, Włodarski T, Chan SHS, Woodburn LF, Bukvin IV, Streit JO, Cabrita LD, Waudby CA*, Christodoulou J*. Nature Chemistry 13 1214-1220 (2021). Interactions between nascent proteins and the ribosome surface inhibit co-translational folding.
  4. Burridge C*, Waudby CA*, Wlodarski T, Cassaignau AME, Cabrita LD, Christodoulou J. Chem Sci 12 13120-13126 (2021). Nascent chain dynamics and ribosome interactions within folded ribosome-nascent chain complexes observed by NMR spectroscopy.
  5. Badjic JD, Pavlović RZ, Lalisse RF, Hansen AL, Waudby CA, Zhiquan L, Guney M, Wang X, Hadad CM. Angew Chem Int Ed 60 19942-19948 (2021). From Selection to Instruction and Back: Competing Conformational Selection and Induced Fit Pathways in Abiotic Hosts.
  6. Waudby CA, Christodoulou J. Magn Reson 2 777-793 (2021). Analysis of conformational exchange processes using methyl-TROSY-based Hahn echo measurements of quadruple-quantum relaxation.
  7. Waudby CA, Burridge C, Christodoulou J. J Magn Reson 326 106973 (2021). Optimal design of adaptively sampled NMR experiments for measurement of methyl group dynamics with application to a ribosome-nascent chain complex.

2020

  1. Jagger AM*, Waudby CA*, Irving JA, Christodoulou J, Lomas DA. Nature Commun 11 6371 (2020). High-resolution ex vivo NMR spectroscopy of human Z ɑ1-antitrypsin.
  2. Waudby CA, Christodoulou J. Methods Mol Biol 2141 477-504 (2020). NMR Lineshape Analysis of Intrinsically Disordered Protein Interactions.
  3. Stadmiller S, Aguilar J, Waudby CA, Pielak G. Biophys J 118 2537-2548 (2020). Rapid quantification of protein-ligand binding via 19F NMR lineshape analysis.
  4. Ben Bdira F, Waudby CA, Volkov AN, Schröder SP, Ab E, Codée JDC, Overkleeft HS, Aerts JMFG, van Ingen H, Ubbink M. Angew Chem Int Ed 59 20508-20514 (2020). Dynamics of Ligand Binding to a Rigid Glycosylase.
  5. Waudby CA, Ouvry M, Davis B, Christodoulou J. J Biomol NMR 74 95-109 (2020). Two-dimensional NMR lineshape analysis of single, multiple, zero and double quantum correlation experiments.

2019

  1. Wang X, Kirkpatrick JP, Launay HMM, De Simone A, Häussinger D, Dobson CM, Vendruscolo M, Cabrita LD, Waudby CA*, Christodoulou J*. Scientific Reports 9 13528 (2019). Probing the dynamic stalk region of the ribosome using solution NMR.
  2. Corazza A, Verona G, Waudby CA, Mangione P, Bingham R, Uings I, Canetti D, Nocerino P, Taylor GW, Pepys MB, Christodoulou J & Bellotti V. J Med Chem 62 8274-8283 (2019). Binding of Monovalent and Bivalent Ligands by Transthyretin Causes Different Short- and Long-Distance Conformational Changes.
  3. Waudby CA, Frenkiel T, Christodoulou J. Angew Chemie Int Ed 131 8876-8880 (2019). Cross-peaks in simple two-dimensional NMR experiments from chemical exchange of transverse magnetization.

2018

  1. Waudby CA, Karyadi M, Wlodarski T, Cassaignau A, Chan S, Schmidt-Engler J, Wentink A, Camilloni C, Vendruscolo M, Cabrita LD, Christodoulou J. Proc Natl Acad Sci U S A 115 9744-9749 (2018). Systematic mapping of energy landscapes identifies a kinetic intermediate associated with the co-translational folding of a filamin domain.

2017

  1. Ahn M, Waudby CA, Bernardo-Gancedo A, De Genst E, Dhulesia A, Salvatella X, Christodoulou C, Dobson CM, Kumita JM. Sci Rep 7 15018 (2017). Application of lysine-specific labeling to detect transient interactions present during human lysozyme amyloid fibril formation.

2016

  1. Cassaignau AM, Launay HM, Karyadi ME, Wang X, Waudby CA, Deckert A, Robertson AL, Christodoulou J, Cabrita LD. Nat Protoc 11 1492-1507 (2016). A strategy for co-translational folding studies of ribosome-bound nascent chain complexes using NMR spectroscopy.
  2. Waudby CA, Ramos A, Cabrita LD, Christodoulou J. Sci Rep 6 24826 (2016). Two-Dimensional NMR Lineshape Analysis.
  3. Deckert A, Waudby CA, Wlodarski T, Wentink AS, Wang X, Kirkpatrick JP, Paton JF, Camilloni C, Kukic P, Dobson CM, Vendruscolo M, Cabrita LD, Christodoulou J. Proc Natl Acad Sci U S A 113 5012-7 (2016). Structural characterization of the interaction of α-synuclein nascent chains with the ribosomal surface and trigger factor.
  4. Cabrita LD, Cassaignau AM, Launay HM, Waudby CA, Wlodarski T, Camilloni C, Karyadi ME, Robertson AL, Wang X, Wentink AS, Goodsell LS, Woolhead CA, Vendruscolo M, Dobson CM, Christodoulou J. Nat Struct Mol Biol 23 278-85 (2016). A structural ensemble of a ribosome-nascent chain complex during cotranslational protein folding.
  5. Valleix S, Verona G, Jourde-Chiche N, Nédelec B, Mangione PP, Bridoux F, Mangé A, Dogan A, Goujon JM, Lhomme M, Dauteuille C, Chabert M, Porcari R, Waudby CA, Relini A, Talmud PJ, Kovrov O, Olivecrona G, Stoppini M, Christodoulou J, Hawkins PN, Grateau G, Delpech M, Kontush A, Gillmore JD, Kalopissis AD, Bellotti V. Nat Commun 7 10353 (2016). D25V apolipoprotein C-III variant causes dominant hereditary systemic amyloidosis and confers cardiovascular protective lipoprotein profile.

2015

  1. Chan SH*, Waudby CA*, Cassaignau AM, Cabrita LD, Christodoulou J. J Biomol NMR 63 151-63 (2015). Increasing the sensitivity of NMR diffusion measurements by paramagnetic longitudinal relaxation enhancement, with application to ribosome-nascent chain complexes.
  2. Porcari R, Proukakis C, Waudby CA, Bolognesi B, Mangione PP, Paton JF, Mullin S, Cabrita LD, Penco A, Relini A, Verona G, Vendruscolo M, Stoppini M, Tartaglia GG, Camilloni C, Christodoulou J, Schapira AH, Bellotti V. J Biol Chem 290 2395-404 (2015). The H50Q mutation induces a 10-fold decrease in the solubility of α-synuclein.

2013

  1. Waudby CA, Camilloni C, Fitzpatrick AWP, Dobson CM, Vendruscolo M, Christodoulou J. PLoS ONE 8 e72286 (2013). In-cell NMR spectroscopy reveals the secondary structure of a disordered conformation of α-synuclein within the cell.
  2. Daturpalli S, Wang S, Buell A, Waudby CA, Meehan S, Jackson SE. J Mol Biol 425 4614-4628 (2013). Hsp90 Inhibits α-Synuclein Aggregation by Interacting with Soluble Oligomers.
  3. Fitzpatrick AWP, Debelouchina GT, Bayro MJ, Clare DK, Caporini MA, Vajaj VS, Jaroniec CP, Wang L, Ladizhandsky V, Muller S, MacPhee CE, Waudby CA, Mott H, de Simone A, Knowles TPJ, Saibil HR, Vendruscolo M, Orlova E, Griffin RG, Dobson CM. Proc Natl Acad Sci U S A 110 5468-5473 (2013). Atomic-resolution structure of a cross-β amyloid fibril.

2012

  1. Waudby CA, Mantle MD, Cabrita LD, Gladden LF, Dobson CM, Christodoulou J. J Am Chem Soc 134 11312-11315 (2012). Rapid distinction of intracellular and extracellular proteins using NMR diffusion measurements.
  2. Waudby CA (corresponding), Christodoulou J. J Magn Reson 219 46-52 (2012). An analysis of NMR sensitivity enhancements obtained using non-uniform weighted sampling, and the application to protein NMR.
  3. Nyon MP, Lévy GR, Segu L, Cabrita LD, Kirkpatrick J, Roussel BD, Patschull AOM, Barrett TE, Ekeowa UI, Kerr R, Waudby CA, Kalsheker N, Hill M, Thalassinos K, Christodoulou J, Gooptu B, Lomas DA. Structure 20 504-512 (2012). Structural dynamics associated with intermediate formation in an archetypal conformational disease.

2011

  1. Shammas SL, Waudby CA, Wang S, Buell AK, Ecroyd H, Welland ME, Carver JA, Dobson CM, Meehan S. Biophys J 101 1681-9 (2011). Binding of the molecular chaperone αB-crystallin to Aβ amyloid fibrils inhibits fibril elongation.
  2. Fitzpatrick A, Knowles TPJ, Waudby CA, Vendruscolo M, Dobson CM. PLoS Comp Biol 7, e1002169 (2011). Inversion of the Balance between Hydrophobic and Hydrogen Bonding Interactions in Protein Folding and Aggregation.
  3. Cabrita LD*, Waudby CA*, Dobson CM, Christodoulou J. Methods Mol Biol 752, 97-120 (2011). Solution-state nuclear magnetic resonance spectroscopy and protein folding.
  4. Baldwin AJ, Knowles TPJ, Tartaglia G, Fitzpatrick A, Devlin G, Shammas S, Waudby CA, Mossuto MF, Gras SL, Christodoulou J, Anthony-Cahill SJ, Barker PD, Dobson CM. J Am Chem Soc 133, 14160-3 (2011). Metastability of native proteins and the phenomenon of amyloid formation.
  5. Waudby CA, Christodoulou J. J Magn Reson 211, 67-73 (2011). GPU accelerated Monte Carlo simulation of pulsed-field gradient NMR experiments.
  6. Roodveldt C, Labrador-Garrido A, Gonzalez-Rey E, Fernandez-Monrtesinos R, Caro M, Lachaud CC, Waudby CA, Delgado M, Dobson CM, Pozo D. PLoS ONE 5, e13481 (2011). Glial innate immunity generated by non-aggregated alpha-synuclein in mouse: differences between wild-type and Parkinson's disease-linked mutants.
  7. de-Genst EJJ, Guilliams T, Wellens J, O'Day E, Waudby CA, Meehan S, Dumoulin M, Hsu STD, Cremades N, Pardon E, Steyaert J, Wyns L, Christodoulou J, Dobson CM. J Mol Biol 402, 326-343 (2011). Structure and properties of a complex of α-synuclein and a single domain camelid antibody.

2010

  1. Carnall JM, Waudby CA, Belenguer AM, Stuart MC, Peyralans JJ & Otto S. Science 327, 1502-1506 (2010). Mechanosensitive self-replication driven by self-organization.
  2. Waudby CA, Knowles TPJ, Devlin GL, Skepper JN, Ecroyd H, Carver JA, Welland ME, Christodoulou J, Dobson CM, Meehan S. Biophys J 98, 843-851 (2010). The interaction of αB-crystallin with mature α-synuclein amyloid fibrils inhibits their elongation.

2009

  1. Knowles TPJ, Waudby CA, Devlin GL, Cohen SIA, Aguzzi A, Vendruscolo M, Terentjev EM, Welland ME & Dobson CM. Science 326, 1533-1537 (2009). An analytical solution to the kinetics of breakable filament assembly.
  2. Lendel C, Bertoncini CW, Cremades N, Waudby CA, Vendruscolo M, Dobson CM, Schenk D, Christodoulou J & Toth G. Biochemistry 48, 8322-8334 (2009). On the mechanism of nonspecific inhibitors of protein aggregation: dissecting the interactions of alpha-synuclein with Congo red and Lacmoid.
  3. Büll AK, Tartaglia GG, Birkett NR, Waudby CA, Vendruscolo M, Salvatella X, Welland ME, Dobson CM & Knowles TPJ. ChemBioChem 10, 1309-1312 (2009). Position-dependent electrostatic protection against protein aggregation.

2004

  1. Townsend JA, Adams SE, Waudby CA, de Souza VK, Goodman JM & Murray-Rust P. Org Biomol Chem 2, 3294-3300 (2004). Chemical documents: machine understanding and automated information extraction.
  2. Adams SE, Goodman JM, Kidd RJ, McNaught AD, Murray-Rust P, Norton FR, Townsend JA & Waudby CA. Org Biomol Chem 2, 3067-3070 (2004). Experimental data checker: better information for organic chemists.

Reviews

2022

  1. Waudby CA*, Burridge C*, Cabrita LD, Christodoulou J. Curr Opin Struct Biol 74 102357 (2022). Thermodynamics of co-translational folding and ribosome-nascent chain interactions.

2019

  1. Waudby CA, Dobson CM, Christodoulou J. Trends Biochem Sci (2019). The regulation of protein folding on the ribosome.

2013

  1. Waudby CA, Launey H, Cabrita LD, Christodoulou J. Prog Nucl Magn Reson Spectrosc 74 57-75 (2013). Protein folding on the ribosome studied using NMR spectroscopy.

Book Reviews

  1. Waudby CA, Christodoulou J. ChemBioChem (2013). NMR of Biomolecules: Towards Mechanistic Systems Biology.

Selected talks

  • RSC CBBG Forum (Belfast, Jan 2023). TITAN: Getting the most from NMR titration experiments with two-dimensional lineshape analysis.
  • SBGrid Seminar (Jan 2023). TITAN: Getting the most from NMR titration experiments with two-dimensional lineshape analysis.
  • RSC NMRDG (London, December 2022). Analysis of side-chain dynamics using slow-relaxing methyl quadruple-quantum coherences.
  • Advanced Isotopic Labelling Methods (Grenoble, September 2022). NMR without labelling: High-resolution ex vivo spectroscopy of patient-derived, disease-associated α1-antitrypsin variants.
  • Global NMR Twitter Conference (Aug 2022). NMRTools.jl: a simple, open source interface for NMR data in Julia.
  • EUROMAR (Utrecht, Jul 2022). Analysis of sidechain dynamics using slowly-relaxing methyl quadruple-quantum coherences.
  • CCPN (Ambleside, Aug 2021). Probing chemical exchange using multiple-quantum coherences.
  • Global NMR Discussion Meetings (June 2021). Two-dimensional lineshape analysis of biomolecular interactions.
  • ELRIG (Feb 2021). New developments in the analysis of molecular interactions using NMR spectroscopy.
  • ICMRBS ECR Webinar (Sep 2020). High-resolution ex vivo NMR spectroscopy of human Z ɑ1-antitrypsin.
  • ENC (Baltimore, Mar 2020). Dissecting interactions of nascent chains with the ribosome surface using NMR spectroscopy.
  • British Crystallographic Association Spring Meeting (Nottingham, Apr 2019). Dissecting the interactions of nascent chains with the ribosome surface: an intrinsic holdase activity of the ribosome surface?
  • London NMR Forum (London, Jan 2019). New developments in two-dimensional NMR lineshape analysis.
  • ICMRBS (Dublin, Aug 2018). High-resolution 2D NMR spectroscopy of patient-derived glycoproteins at natural isotopic abundance.
  • EUROMAR (Nantes, Jul 2018). Quantifying ribosome-nascent chain interactions and intracellular quinary structure using adaptively sampled measurements of cross-correlated relaxation in methyl spin systems.
  • British/Belgian Biophysical Societies (Brussells, Feb 2018). Mapping the free energy landscapes for co-translational folding of a filamin domain.