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    Protein Science: Volume 32, Issue 11

    November 2023
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  • First Published: 14 October 2023
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A combination of thermodynamic analysis, X-ray crystallography, and molecular dynamics (MD) simulations have revealed the molecular mechanism by which an arginine cluster introduced in the framework region of an Fab antibody enhanced affinity toward its antigen. For details, see: Shingo Maeta et al., Protein Science, 2023. https://doi.org/10.1002/pro.4745

Issue Information

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Issue information

  • First Published: 14 October 2023

RESEARCH ARTICLES

Open Access

De novo design of monomeric helical bundles for pH-controlled membrane lysis

Nicolas Goldbach,  Issa Benna,  Basile I. M. Wicky,  Jacob T. Croft,  Lauren Carter,  Asim K. Bera,  Hannah Nguyen,  Alex Kang,  Banumathi Sankaran,  Erin C. Yang,  Kelly K. Lee,  David Baker, 
  • First Published: 26 August 2023

TOOLS FOR PROTEIN SCIENCE

Free Access

Kalium 3.0 is a comprehensive depository of natural, artificial, and labeled polypeptides acting on potassium channels

Nikolay A. Krylov,  Valentin M. Tabakmakher,  Daria A. Yureva,  Alexander A. Vassilevski,  Alexey I. Kuzmenkov, 
  • First Published: 08 September 2023

RESEARCH NOTE

Open Access

Zero-shot mutation effect prediction on protein stability and function using RoseTTAFold

Sanaa Mansoor,  Minkyung Baek,  David Juergens,  Joseph L. Watson,  David Baker, 
  • First Published: 11 September 2023

RESEARCH ARTICLES

Open Access

Domain swap facilitates structural transitions of spider silk protein C-terminal domains

Charlotte Rat,  Cedric Heindl,  Hannes Neuweiler, 
  • First Published: 15 September 2023
Open Access

Structural features of thyroglobulin linked to protein trafficking

Cintia E. Citterio,  Kookjoo Kim,  Bhavana Rajesh,  Kevin Pena,  Oliver Biggs Clarke,  Peter Arvan, 
  • First Published: 17 September 2023

REVIEW ARTICLES

Free Access

Multi-perspectives and challenges in identifying B-cell epitopes

Nishant Kumar,  Nisha Bajiya,  Sumeet Patiyal,  Gajendra P. S. Raghava, 
  • First Published: 21 September 2023

METHODS AND APPLICATIONS

Open Access

Investigating protein-membrane interactions using native reverse micelles constructed from naturally sourced lipids

Sara H. Walters,  Abdul J. Castillo,  Angela M. Develin,  Courtney L. Labrecque,  Yun Qu,  Brian Fuglestad, 
  • First Published: 25 September 2023

RESEARCH ARTICLES

Free Access

The variable domain from dynamin-related protein 1 promotes liquid–liquid phase separation that enhances its interaction with cardiolipin-containing membranes

Ammon E. Posey,  Kyle A. Ross,  Mehran Bagheri,  Elizabeth N. Lanum,  Misha A. Khan,  Christine E. Jennings,  Megan C. Harwig,  Nolan W. Kennedy,  Vincent J. Hilser,  James L. Harden,  R. Blake Hill, 
  • First Published: 24 September 2023
Open Access

Iron insertion into coproporphyrin III-ferrochelatase complex: Evidence for an intermediate distorted catalytic species

Thomas Gabler,  Andrea Dali,  Federico Sebastiani,  Paul Georg Furtmüller,  Maurizio Becucci,  Stefan Hofbauer,  Giulietta Smulevich, 
  • First Published: 24 September 2023
Open Access

In silico protein dynamics in the human cytoplasm: Partial folding, misfolding, fold switching, and non-native interactions

Premila P. Samuel Russell,  Meredith M. Rickard,  Mayank Boob,  Martin Gruebele,  Taras V. Pogorelov, 
  • First Published: 29 September 2023
Open Access

Probing macromolecular crowding at the lipid membrane interface with genetically-encoded sensors

Maryna Löwe,  Sebastian Hänsch,  Eymen Hachani,  Lutz Schmitt,  Stefanie Weidtkamp-Peters,  Alexej Kedrov, 
  • First Published: 01 October 2023

TOOLS FOR PROTEIN SCIENCE

Open Access

CC+: A searchable database of validated coiled coils in PDB structures and AlphaFold2 models

Prasun Kumar,  Rokas Petrenas,  William M. Dawson,  Hugo Schweke,  Emmanuel D. Levy,  Derek N. Woolfson, 
  • First Published: 28 September 2023
Open Access

UCSF ChimeraX: Tools for structure building and analysis

Elaine C. Meng,  Thomas D. Goddard,  Eric F. Pettersen,  Greg S. Couch,  Zach J. Pearson,  John H. Morris,  Thomas E. Ferrin, 
  • First Published: 29 September 2023

RESEARCH ARTICLES

Open Access

Retracing the evolution of a modern periplasmic binding protein

Florian Michel,  Sergio Romero-Romero,  Birte Höcker, 
  • First Published: 03 October 2023
Open Access

Controlling the interaction between CaMKII and Calmodulin with a photocrosslinking unnatural amino acid

Iva Lučić,  Pin-Lian Jiang,  Andreas Franz,  Yuval Bursztyn,  Fan Liu,  Andrew J. R. Plested, 
  • First Published: 02 October 2023
Open Access

On the regulation of human D-aspartate oxidase

Valentina Rabattoni,  Zoraide Motta,  Matteo Miceli,  Gianluca Molla,  Alex Fissore,  Salvatore Adinolfi,  Loredano Pollegioni,  Silvia Sacchi, 
  • First Published: 08 October 2023
Open Access

14-3-3 protein inhibits CaMKK1 by blocking the kinase active site with its last two C-terminal helices

Olivia Petrvalska,  Karolina Honzejkova,  Nicola Koupilova,  Petr Herman,  Veronika Obsilova,  Tomas Obsil, 
  • First Published: 10 October 2023
Open Access

Side-chain dynamics of the α1B-adrenergic receptor determined by NMR via methyl relaxation

Christian Baumann,  Wan-Chin Chiang,  Renato Valsecchi,  Simon Jurt,  Mattia Deluigi,  Matthias Schuster,  Karl Johan Rosengren,  Andreas Plückthun,  Oliver Zerbe, 
  • First Published: 08 October 2023
Open Access

Identification and characterization of a small molecule that activates thiosulfate sulfurtransferase and stimulates mitochondrial respiration

Zeyana M. Al-Dahmani,  Mojgan Hadian,  Angel J. Ruiz-Moreno,  Sabogal-Guaqueta Angelica Maria,  Fernando A. Batista,  Ran Zhang,  Yang Luo,  Afsaneh Sadremomtaz,  Robin van der Straat,  Mette Spoor,  Amalia M. Dolga,  Frank J. Dekker,  Alexander Dömling S S,  Harry van Goor,  Matthew R. Groves, 
  • First Published: 06 October 2023
Open Access

One-step site-specific S-alkylation of full-length caveolin-1: Lipidation modulates the topology of its C-terminal domain

Jeffrey A. Julien,  Alain Rousseau,  Thomas V. Perone,  David M. LaGatta,  Chan Hong,  Kyle T. Root,  Soohyung Park,  René Fuanta,  Wonpil Im,  Kerney Jebrell Glover, 
  • First Published: 06 October 2023
Free Access

Photomodulation of the ASIC1a acidic pocket destabilizes the open state

Matthew L. Rook,  Tyler W. McCullock,  Tyler Couch,  John D. Lueck,  David M. MacLean, 
  • First Published: 08 October 2023
Free Access

Coronaviruses spike glycoprotein endodomains: The sequence and structure-based comprehensive study

Prateek Kumar,  Aparna Bhardwaj,  Bodhidipra Mukherjee,  Richa Joshi,  Rajanish Giri, 
  • First Published: 13 October 2023
Open Access

DUF916 and DUF3324 in the WxL protein cluster bind to WxL and link bacterial and host surfaces

Mahreen U. Hassan,  Roy R. Chaudhuri,  Mike P. Williamson, 
  • First Published: 13 October 2023
Free Access

Characterization of the inner membrane cytochrome ImcH from Geobacter reveals its importance for extracellular electron transfer and energy conservation

Andreia I. Pimenta,  Catarina M. Paquete,  Leonor Morgado,  Marcus J. Edwards,  Thomas A. Clarke,  Carlos A. Salgueiro,  Inês A. C. Pereira,  Américo G. Duarte, 
  • First Published: 01 October 2023