Proteinevolution

Forskningsoutput

Forskningsoutput per år 2021 2022 2023 2024 2024

• 25 Artikel i vetenskaplig tidskrift
• 1 Publicerat konferensabstract
• 1 Preprint (i preprint-arkiv)

Forskningsoutput per år

Forskningsoutput per år

Sökresultat

• 2024

  Toxic small alarmone synthetase FaRel2 inhibits translation by pyrophosphorylating tRNAGly and tRNAThr

  Kurata, T., Takegawa, M., Ohira, T., Syroegin, E. A., Atkinson, G. C., Johansson, M. J. O., Polikanov, Y. S., Garcia-Pino, A., Suzuki, T. & Hauryliuk, V., 2024 nov. 15, I: Science Advances. 10, 46, eadr9624.

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Aminoacylation 100%
  • Toxin-Antitoxin System 100%

• Activity, structure, and diversity of Type II proline-rich antimicrobial peptides from insects

  Huang, W., Baliga, C., Aleksandrova, E. V., Atkinson, G., Polikanov, Y. S., Vázquez-Laslop, N. & Mankin, A. S., 2024 nov. 8, I: EMBO Reports. 25, 11, s. 5194-5211 18 s.

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Antimicrobial Peptides 100%
  • Proline 100%
  • C-Terminus 66%
  • Stop Codon 66%
  • N-Terminus 66%

• In-depth proteomic analysis and structural modelling of protein-protein interactions identify known and novel molecular binding partners for EMP3 in erythroid cells

  Alattar, A. G., Ghosh, S., Chouhan, B., Pimkova, K., Atkinson, G., Flygare, J., Hansson, J., Storry, J. & Olsson, M. L., 2024 juni 22, I: Vox Sanguinis. 119, S1, PA26-L06.

  Forskningsoutput: Tidskriftsbidrag › Publicerat konferensabstract › Peer review

  Öppen tillgång

  • Proteomics 100%
  • Membrane Protein 100%
  • Protein Protein Interaction 100%
  • Erythroid Cell 100%
  • Salt 100%

• Mechanisms of neutralization of toxSAS from toxin-antitoxin modules

  Dominguez-Molina, L., Kurata, T., Cepauskas, A., Echemendia-Blanco, D., Zedek, S., Talavera-Perez, A., Atkinson, G. C., Hauryliuk, V. & Garcia-Pino, A., 2024 juni 4, (E-pub ahead of print) I: Nature Chemical Biology.

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Transfer RNA 100%
  • Enzyme 50%
  • Synthesis 50%
  • Binding Site 50%
  • Enzyme Specificity 50%

• Structure-functional characterization of Lactococcus AbiA phage defense system

  Gapińska, M., Zajko, W., Skowronek, K., Figiel, M., Krawczyk, P. S., Egorov, A. A., Dziembowski, A., Johansson, M. J. O. & Nowotny, M., 2024 maj 8, I: Nucleic Acids Research. 52, 8, s. 4723-4738 16 s.

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Reverse Transcriptase 100%
  • Lactococcus 100%
  • Enzyme 40%
  • Polymerase 40%
  • Eukaryote 40%

• Peptidyl-tRNA hydrolase is the nascent chain release factor in bacterial ribosome-associated quality control

  Svetlov, M. S., Dunand, C. F., Nakamoto, J. A., Atkinson, G. C., Safdari, H. A., Wilson, D. N., Vázquez-Laslop, N. & Mankin, A. S., 2024 feb., I: Molecular Cell. 84, 4, s. 715-726.e5

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  • Quality Control 100%
  • Transfer RNA 100%
  • Ribosome 100%
  • Release Factor 100%
  • Hydrolysis 80%

• A Comprehensive Resource for Exploring Antiphage Defense: DefenseFinder Webservice,Wiki and Databases

  Tesson, F., Planel, R., Egorov, A. A., Georjon, H., Vaysset, H., Brancotte, B., Néron, B., Mordret, E., Atkinson, G. C., Bernheim, A. & Cury, J., 2024, I: Peer Community Journal. 4, e91.

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  • Bioinformatics 100%
  • Structure Prediction 100%
  • Spider Web 50%
  • Initial Release 50%
  • Search Function 50%

• A role for the S4-domain containing protein YlmH in ribosome-associated quality control in Bacillus subtilis

  Takada, H., Paternoga, H., Fujiwara, K., Nakamoto, J. A., Park, E. N., Dimitrova-Paternoga, L., Beckert, B., Saarma, M., Tenson, T., Buskirk, A. R., Atkinson, G. C., Chiba, S., Wilson, D. N. & Hauryliuk, V., 2024, I: Nucleic Acids Research. 52, 14, gkae399.

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Protein 100%
  • Quality Control 100%
  • Ribosome 100%
  • Bacillus Subtilis 100%
  • Bacillus subtilis 25%

• Mechanism of phage sensing and restriction by toxin-antitoxin-chaperone systems

  Mets, T., Kurata, T., Ernits, K., Johansson, M. J. O., Craig, S. Z., Evora, G. M., Buttress, J. A., Odai, R., Wallant, K. C., Nakamoto, J. A., Shyrokova, L., Egorov, A. A., Doering, C. R., Brodiazhenko, T., Laub, M. T., Tenson, T., Strahl, H., Martens, C., Harms, A. & Garcia-Pino, A. & 2 andra, Atkinson, G. C. & Hauryliuk, V., 2024, I: Cell Host and Microbe. 32, 7, s. 1059-1073.e8

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Addictive Behavior 100%
  • Protein 33%
  • Element 33%
  • Gene 33%
  • Protein Biosynthesis 33%

• Resolution of ribosomal stalling by EF-P and ABCF ATPases YfmR and YkpA/YbiT

  Takada, H., Fujiwara, K., Atkinson, G. C., Chiba, S. & Hauryliuk, V., 2024, I: Nucleic Acids Research. 52, 16, s. 9854-9866

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Protein Biosynthesis 100%
  • Amino Acids 100%
  • Proline 100%
  • Protein Synthesis 100%
  • Genetics 50%

• Structural basis of Cfr-mediated antimicrobial resistance and mechanisms to evade it

  Aleksandrova, E. V., Wu, K. J. Y., Tresco, B. I. C., Syroegin, E. A., Killeavy, E. E., Balasanyants, S. M., Svetlov, M. S., Gregory, S. T., Atkinson, G. C., Myers, A. G. & Polikanov, Y. S., 2024, I: Nature Chemical Biology. 20, 7, s. 867-876

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  • Peptidyl Transferase 100%
  • Ribosome 75%
  • Gram Positive Bacterium 25%
  • Nucleobase 25%
  • Methyltransferase 25%

• The ABCF ATPase New1 resolves translation termination defects associated with specific tRNAArg and tRNALys isoacceptors in the P site

  Turnbull, K., Paternoga, H., von der Weth, E., Egorov, A. A., Pochopien, A. A., Zhang, Y., Nersisyan, L., Margus, T., Johansson, M. J. O., Pelechano, V., Wilson, D. N. & Hauryliuk, V., 2024, I: Nucleic Acids Research. 52, 19, s. 12005-12020

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • P-Site 100%
  • Translation Termination 100%
  • Ribosome 60%
  • Stop Codon 60%
  • Transfer RNA 40%
• 2023

  The native ABC-F proteins of Staphylococcus aureus do not contribute to intrinsic resistance against ribosome-targeting antibacterial drugs

  Galarion, L. H., Trigwell, J., Mohamad, M., Nakamoto, J. A., Clarke, J. E., Atkinson, G. C. & O'neill, A. J., 2023 okt., I: Journal of Antimicrobial Chemotherapy. 78, 10, s. 2601-2603 3 s.

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

• Structural basis of Cfr-mediated antimicrobial resistance and mechanisms for its evasion

  Aleksandrova, E. V., Wu, K. J. Y., Tresco, B. I. C., Syroegin, E. A., Killeavy, E. E., Balasanyants, S. M., Svetlov, M. S., Gregory, S. T., Atkinson, G. C., Myers, A. G. & Polikanov, Y. S., 2023 sep. 28, bioRxiv.

  Forskningsoutput: Working paper/Preprint › Preprint (i preprint-arkiv)

  • Ribosome 100%
  • Peptidyl Transferase 75%
  • Methyltransferase 50%
  • Adenine 50%
  • 23S Ribosomal RNA 25%

• The structural basis of hyperpromiscuity in a core combinatorial network of type II toxin-antitoxin and related phage defense systems

  Ernits, K., Saha, C. K., Brodiazhenko, T., Chouhan, B., Shenoy, A., Buttress, J. A., Duque-Pedraza, J. J., Bojar, V., Nakamoto, J. A., Kurata, T., Egorov, A. A., Shyrokova, L., Johansson, M. J. O., Mets, T., Rustamova, A., Džigurski, J., Tenson, T., Garcia-Pino, A., Strahl, H. & Elofsson, A. & 2 andra, Hauryliuk, V. & Atkinson, G. C., 2023 aug. 15, I: Proceedings of the National Academy of Sciences of the United States of America. 120, 33, s. 1-12 e2305393120.

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Neutralization 100%
  • Gene 33%
  • Genetics 33%
  • Protein 33%
  • Bioinformatics 33%

• The structure of DarB in complex with RelNTD reveals nonribosomal activation of Rel stringent factors

  Ainelo, A., Caballero-Montes, J., Bulvas, O., Ernits, K., Coppieters 't Wallant, K., Takada, H., Craig, S. Z., Mazzucchelli, G., Zedek, S., Pichová, I., Atkinson, G. C., Talavera, A., Martens, C., Hauryliuk, V. & Garcia-Pino, A., 2023 jan. 18, I: Science Advances. 9, 3, s. 1-14 eade4077.

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Enzyme 100%
  • Synthesis 100%
  • Protein 100%
  • Adenosine Monophosphate 100%
  • Ribosome 100%

• Genome-encoded ABCF factors implicated in intrinsic antibiotic resistance in Gram-positive bacteria: VmlR2, Ard1 and CplR

  Obana, N., Takada, H., Crowe-McAuliffe, C., Iwamoto, M., Egorov, A. A., Wu, K. J. Y., Chiba, S., Murina, V., Paternoga, H., Tresco, B. I. C., Nomura, N., Myers, A. G., Atkinson, G. C., Wilson, D. N. & Hauryliuk, V., 2023, I: Nucleic Acids Research. 51, 9, s. 4536-4554

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Antibiotic Resistance 100%
  • Gram Positive Bacterium 100%
  • Antimicrobial Resistance 100%
  • Antibiotics 28%
  • Transposon 14%

• Structure of SpoT reveals evolutionary tuning of catalysis via conformational constraint

  Tamman, H., Ernits, K., Roghanian, M., Ainelo, A., Julius, C., Perrier, A., Talavera, A., Ainelo, H., Dugauquier, R., Zedek, S., Thureau, A., Pérez, J., Lima-Mendez, G., Hallez, R., Atkinson, G. C., Hauryliuk, V. & Garcia-Pino, A., 2023, I: Nature Chemical Biology. 19, 3, s. 334-345

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Enzymatic Hydrolysis 100%
  • Catalysis 100%
  • Hydrolysis 100%
  • Synthesis 66%
  • Enzyme 33%

• uORF4u: a tool for annotation of conserved upstream open reading frames

  Egorov, A. A. & Atkinson, G. C., 2023, I: Bioinformatics. 39, 5, btad323.

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Protein 100%
  • Transcription 100%
  • Species 50%
  • Eukaryote 50%
  • Codon 50%
• 2022

  Context-based sensing of orthosomycin antibiotics by the translating ribosome

  Mangano, K., Marks, J., Klepacki, D., Saha, C. K., Atkinson, G. C., Vázquez-Laslop, N. & Mankin, A. S., 2022 nov., I: Nature Chemical Biology. 18, 11, s. 1277-1286 10 s.

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  • Ribosome 100%
  • Translating (Language) 100%
  • Gene 33%
  • Species 33%
  • Protein 33%

• A hyperpromiscuous antitoxin protein domain for the neutralization of diverse toxin domains

  Kurata, T., Saha, C. K., Buttress, J. A., Mets, T., Brodiazhenko, T., Turnbull, K. J., Awoyomi, O. F., Oliveira, S. R. A., Jimmy, S., Ernits, K., Delannoy, M., Persson, K., Tenson, T., Strahl, H., Hauryliuk, V. & Atkinson, G. C., 2022, I: Proceedings of the National Academy of Sciences of the United States of America. 119, 6, s. 1-12 e2102212119.

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Antitoxin 100%
  • Toxin 100%
  • Protein Domain 100%
  • Neutralization 100%
  • Bacteriophage 16%

• Expression of Bacillus subtilis ABCF antibiotic resistance factor VmlR is regulated by RNA polymerase pausing, transcription attenuation, translation attenuation and (p)ppGpp

  Hiraku, T., Mandell, Z. F., Yakhnin, H., Glazyrina, A., Chiba, S., Kurata, T., Wu, K. J. Y., Tresco, B. I. C., Myers, A. G., Atkinson, G., Babitzke, P. & Hauryliuk, V., 2022, I: Nucleic Acids Research. 50, 11, s. 6174-6189 gkac497.

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Transcription 100%
  • R-Factor 100%
  • RNA Polymerase 100%
  • Ribosome 75%
  • Bacterium 25%

• Sal-type ABC-F proteins: Intrinsic and common mediators of pleuromutilin resistance by target protection in staphylococci

  Mohamad, M., Nicholson, D., Saha, C. K., Hauryliuk, V., Edwards, T. A., Atkinson, G. C., Ranson, N. A. & O'Neill, A. J., 2022, I: Nucleic Acids Research. 50, 4, s. 2128-2142 gkac058.

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Protein 100%
  • Mediator 100%
  • Genus 50%
  • Ribosome 50%
  • Cryo-Electron Microscopy 25%

• Structural basis for HflXr-mediated antibiotic resistance in Listeria monocytogenes

  Koller, T. O., Turnbull, K. J., Vaitkevicius, K., Crowe-McAuliffe, C., Roghanian, M., Bulvas, O., Nakamoto, J. A., Kurata, T., Julius, C., Atkinson, G. C., Johansson, J., Hauryliuk, V. & Wilson, D. N., 2022, I: Nucleic Acids Research. 50, 19 , s. 11285-11300

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Ribosome 100%
  • Antimicrobial Resistance 100%
  • Amino Acids 25%
  • N-Terminus 25%
  • Conformational Change 25%

• Structural basis for PoxtA-mediated resistance to phenicol and oxazolidinone antibiotics

  Crowe-McAuliffe, C., Murina, V., Turnbull, K. J., Huch, S., Kasari, M., Takada, H., Nersisyan, L., Sundsfjord, A., Hegstad, K., Atkinson, G. C., Pelechano, V., Wilson, D. N. & Hauryliuk, V., 2022, I: Nature Communications. 13, 1860.

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Ribosome 100%
  • P-Site 50%
  • Transfer RNA 50%
  • Amino Acids 50%
  • Protein 25%
• 2021

  RelA-SpoT Homolog toxins pyrophosphorylate the CCA end of tRNA to inhibit protein synthesis

  Kurata, T., Brodiazhenko, T., Alves Oliveira, S. R., Roghanian, M., Sakaguchi, Y., Turnbull, K. J., Bulvas, O., Takada, H., Tamman, H., Ainelo, A., Pohl, R., Rejman, D., Tenson, T., Suzuki, T., Garcia-Pino, A., Atkinson, G. C. & Hauryliuk, V., 2021 aug. 5, I: Molecular Cell. 81, 15, s. 3160-3170. e1-e9

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  • Enzyme 100%
  • Protein Biosynthesis 100%
  • Transfer RNA 100%
  • Synthesis 33%
  • RNA 33%

• (p)ppGpp controls stringent factors by exploiting antagonistic allosteric coupling between catalytic domains

  Roghanian, M., Van Nerom, K., Takada, H., Caballero-Montes, J., Tamman, H., Kudrin, P., Talavera, A., Dzhygyr, I., Ekström, S., Atkinson, G. C., Garcia-Pino, A. & Hauryliuk, V., 2021, I: Molecular Cell. 81, 16, s. 3310-3322.e6

  Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

  Öppen tillgång

  • Escherichia coli 100%
  • N-Terminus 100%
  • Enzyme 50%
  • Dynamics 50%
  • Regulatory Mechanism 50%