Alexandre Denesyuk

Publikationer

Publikationer per år 2014 2014 2017 2018 2019 2020 2024

• 26 Artikel

Publikationer per år

Publikationer per år

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• 2024

  The active site of the SGNH hydrolase-like fold proteins: Nucleophile–oxyanion (Nuc- Oxy) and Acid–Base zones

  Denesyuk, A., Denessiouk, K., Johnson, M., Permyakov, S. E., Permyakov, E. A. & Uversky, V. N., jan. 2024, I: Current Research in Structural Biology. 7, 9 s., 100123.

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  • Protein Folds 100%
  • Serine Protease 50%
  40 Nedladdningar (Pure)
• 2023

  Canonical structural-binding modes in the calmodulin-target protein complexes

  Denesyuk, A., Permyakov, S. E., Permyakov, E. A., Johnson, M., Denessiouk, K. & Uversky, V. N., 2023, I: Journal of Biomolecular Structure and Dynamics. 41, 16, s. 7582-7594 13 s.

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  • Protein Complexes 100%
  • Methionine 42%
  • Group Dynamics 21%
  • Peptide Sequence 14%
  • EF Hand 14%
  2 Citeringar (Scopus)

  24 Nedladdningar (Pure)
• 2021

  Structural and functional significance of the amino acid differences Val 35 Thr, Ser 46 Ala, Asn 65 Ser, and Ala 94 Ser in 3C-like proteinases from SARS-CoV-2 and SARS-CoV

  Denesyuk, A., Permyakov, E. A., Johnson, M. S., Permyakov, S. E., Denessiouk, K. & Uversky, V. N., 2021, I: International Journal of Biological Macromolecules. 193

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  Öppen tillgång

  • SARS Coronavirus 100%
  • Proteases 50%
  • Mutation 37%
  • Trypsin 25%
  • Enzymatic Activity 25%
  2 Citeringar (Scopus)

• Structural leitmotif and functional variations of the structural catalytic core in (chymo)trypsin-like serine/cysteine fold proteinases

  Denesyuk, A., Permyakov, S. E., Johnson, M. S., Permyakov, E. A., Uversky, V. N. & Denessiouk, K., 15 maj 2021, I: International Journal of Biological Macromolecules. 179, s. 601-609 9 s.

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  • Core 100%
  • Trypsin 100%
  • Fold 83%
  • Proteases 83%
  • Cysteine 66%
  2 Citeringar (Scopus)

  40 Nedladdningar (Pure)
• 2020

  Highly specific interaction of monomeric S100P protein with interferon beta

  Kazakov, AS., Mayorov, SA., Deryusheva, EI., Avkhacheva, NV., Denessiouk, K., Denesyuk, A., Rastrygina, VA., Permyakov, EA. & [Unknown], P. SE., 2020, I: International Journal of Biological Macromolecules. 143, s. 633–639

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  • S100P 100%
  • EF Hand 22%
  • Fluorescence 11%
  • Cancer Cell 11%
  • Cross-Link 11%
  15 Citeringar (Scopus)

• Interferon Beta Activity Is Modulated via Binding of Specific S100 Proteins

  Kazakov, A. S., Sofin, A. D., Avkhacheva, N. V., Denesyuk, A. I., Deryusheva, E. I., Rastrygina, V. A., Sokolov, A. S., Permyakova, M. E., Litus, E. A., Uversky, V. N., Permyakov, E. A. & Permyakov, S. E., 2020, I: International Journal of Molecular Sciences. 21, 24, s. 1-23 9473.

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  Öppen tillgång

  • Cytokine 100%
  • S100P 100%
  • Binding Protein 50%
  • Cancer Cell 50%
  • Cross-Link 50%
  11 Citeringar (Scopus)

• NBCZone: Universal three-dimensional construction of eleven amino acids near the catalytic nucleophile and base in the superfamily of (chymo)trypsin-like serine fold proteases

  Denesyuk, A. I., Johnson, M. S., Salo-Ahen, O. M. H., Uversky, V. N. & Denessiouk, K., 15 juni 2020, I: International Journal of Biological Macromolecules. 153, s. 399–411

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  • Trypsin 100%
  • Serine 100%
  • Position 100%
  • Disulfide Bond 66%
  • Contrast 66%
  5 Citeringar (Scopus)

  37 Nedladdningar (Pure)

• Papain-like cysteine proteinase zone (PCP-zone) and PCP structural catalytic core (PCP-SCC) of enzymes with cysteine proteinase fold

  Denessiouk, K., Uversky, V. N., Permyakov, S. E., Permyakov, E. A., Johnson, M. S. & Denesyuk, A. I., 2020, I: International Journal of Biological Macromolecules. 165, s. 1438-1446

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  • Cysteine 100%
  • Papain 90%
  • Proteases 90%
  • Lysozyme 27%
  • Conformation 18%
  5 Citeringar (Scopus)

  17 Nedladdningar (Pure)

• System Approach for Building of Calcium-Binding Sites in Proteins

  Denesyuk, A. I., Permyakov, S. E., Johnson, M. S., Denessiouk, K. & Permyakov, E. A., 2020, I: Biomolecules. 10, 4, 588.

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  Öppen tillgång

  • Oxygen 100%
  • Binding Site 100%
  • Calcium Ion 100%
  • Position 100%
  • Atom 100%

• The acid-base-nucleophile catalytic triad in ABH-fold enzymes is coordinated by a set of structural elements

  Denesyuk, A., Dimitriou, P., Johnson, M. S., Nakayama, T. & Denessiouk, K., 2020, I: PLoS ONE. 15, 2, s. –

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  Fil

  • Alpha/Beta Hydrolase Fold 100%
  • Lysozyme 100%
  • Histidine 83%
  • Catalytic Mechanism 33%
  • Protein Engineering 33%
  16 Citeringar (Scopus)

  44 Nedladdningar (Pure)
• 2019

  Analyzing the structural and functional roles of residues from the 'black' and 'gray' clusters of human S100P protein

  Permyakova, ME., Permyakov, SE., Kazakov, AS., Denesyuk, A., Denessiouk, K., Uversky, VN. & Permyakov, EA., 2019, I: Cell Calcium. 80, s. 46–55

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  4 Citeringar (Scopus)

  38 Nedladdningar (Pure)

• Distinctive structural motifs co-ordinate the catalytic nucleophile and the residues of the oxyanion hole in the alpha/beta-hydrolase fold enzymes

  Dimitriou, P., Denesyuk, A., Nakayama, T., Johnson, M. S. & Denessiouk, K., 2019, I: Protein Science. 28, 2, s. 344–364

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  26 Citeringar (Scopus)

  38 Nedladdningar (Pure)

• Experimental Insight into the Structural and Functional Roles of the 'Black' and 'Gray' Clusters in Recoverin, a Calcium Binding Protein with Four EF-Hand Motifs

  Permyakov, SE., Vologzhannikova, AS., Nemashkalova, EL., Kazakov, AS., Denesyuk, A., Denessiouk, K., Baksheeva, VE., Zamyatnin, AA., Zernii, EY., Uversky, VN. & [Unknown], P. EA., 2019, I: Molecules. 24, 13, s. –

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  2 Citeringar (Scopus)

• Monomeric state of S100P protein: Experimental and molecular dynamics study

  Permyakov, SE., Denesyuk, A., Denessiouk, K., Permyakova, ME., Kazakov, AS., Ismailov, RG., Rastrygina, VA., Sokolov, AS. & [Unknown], P. EA., 2019, I: Cell Calcium. 80, s. 152–159

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  12 Citeringar (Scopus)
• 2018

  Comprehensive analysis of the roles of 'black' and 'gray' clusters in structure and function of rat β-parvalbumin.

  Permyakov, SE., Vologzhannikova, AA., Khorn, PA., Shevelyova, MP., Kazakov, AS., Emelyanenko, VI., Denesyuk, A., Denessiouk, K., Uversky, VN. & [Unknown], P. EA., 2018, I: Cell Calcium. 75, s. 64–78

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  8 Citeringar (Scopus)

  29 Nedladdningar (Pure)

• On the relationship between the conserved 'black' and 'gray' structural clusters and intrinsic disorder in parvalbumins.

  Deryusheva, EI., Denesyuk, A., Denessiouk, K., Uversky, VN., Permyakov, SE. & [Unknown], P. EA., 2018, I: International Journal of Biological Macromolecules. 120, A, s. 1055–1062

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  5 Citeringar (Scopus)

  25 Nedladdningar (Pure)

• Top surface blade residues and the central channel water molecules are conserved in every repeat of the integrin-like β-propeller structures.

  Denesyuk, A., Denessiouk, K. & Johnson, M. S., 2018, I: Journal of Structural Biology. 201, 2, s. 155–161

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  2 Citeringar (Scopus)
• 2017

  Alpha/beta-hydrolases: A unique structural motif coordinates catalytic acid residue in 40 protein fold families

  Dimitriou, P., Denesyuk, A., Takahashi, S., Yamashita, S., Johnson, M. S., Nakayama, T. & Denessiouk, K., 2017, I: Proteins. 85, 10, s. 1845–1855

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  23 Citeringar (Scopus)

• Building kit for metal cation binding sites in proteins.

  Denesyuk, A., Permyakov, SE., Johnson, M. S., Permyakov, EA. & Denessiouk, K., 2017, I: Biochemical and Biophysical Research Communications. 494, 1-2, s. 311–317

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  3 Citeringar (Scopus)

• Interleukin-11 binds specific EF-hand proteins via their conserved structural motifs

  Kazakov, A. S., Sokolov, A. S., Vologzhannikova, A. A., Permyakova, M. E., Khorn, P. A., Ismailov, R. G., Denessiouk, K., Denesyuk, A., Rastrygina, V. A., Baksheeva, V. E., Zernii, E. Y., Zinchenko, D. V., Glazatov, V. V., Uversky, V. N., Mirzabekov, T. A., Permyakov, E. A. & Permyakov, S. E., 2017, I: Journal of Biomolecular Structure and Dynamics. 35, 1, s. 78–91

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  22 Citeringar (Scopus)

• Novel calcium recognition constructions in proteins: Calcium blade and EF-hand zone

  Denesyuk, A., Permyakov, S. E., Johnson, M. S., Permyakov, E. A. & Denessiouk, K., 2017, I: Biochemical and Biophysical Research Communications. 483, 3, s. 958–963

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  4 Citeringar (Scopus)
• 2016

  Interleukin-11 binds specific EF-hand proteins via their conserved structural motifs

  Kazakov, AS., Sokolov, AS., Vologzhannikova, AA., Permyakova, ME., Khorn, PA., Ismailov, RG., Denessiouk, K., Denesyuk, A., Rastrygina, VA., Baksheeva, VE., Zernii, EY., Zinchenko, DV., Glazatov, VV., Uversky, VN., Mirzabekov, TA., Permyakov, EA. & Permyakov, SE., 2016, I: Journal of Biomolecular Structure and Dynamics. s. 1–14

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• 2015

  Extremophilic 50S Ribosomal RNA-Binding Protein L35Ae as a Basis for Engineering of an Alternative Protein Scaffold

  Lomonosova, AV., Ovchinnikova, EV., Kazakov, AS., Denesyuk, A., Sofin, AD., Mikhailov, RV., Ulitin, AB., Mirzabekov, TA., Permyakov, EA. & Permyakov, SE., 2015, I: PLoS ONE. 10, 8, s. 1–21

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  2 Citeringar (Scopus)

  19 Nedladdningar (Pure)
• 2014

  Citrullination of collagen II affects integrin-mediated cell adhesion in a receptor-specific manner

  Sipilä, K., Haag, S., Denessiouk, K., Käpylä, J., Peters, EC., Denesyuk, A., Hansen, U., Konttinen, Y., Johnson, M. S., Holmdahl, R. & Heino, J., 2014, I: FASEB Journal. 28, 8, s. 3758–3768

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  36 Citeringar (Scopus)

• Early Chordate Origin of the Vertebrate Integrin aI Domains

  Chouhan, B., Käpylä, J., Denessiouk, K., Denesyuk, A., Heino, J. & Johnson, M. S., 2014, I: PLoS ONE. 9, 11, s. 1–16

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  6 Citeringar (Scopus)

  13 Nedladdningar (Pure)

• Two Structural Motifs within Canonical EF-Hand Calcium- Binding Domains Identify Five Different Classes of Calcium Buffers and Sensors

  Denessiouk, K., Permyakov, S., Denesyuk, A., Permyakov, E. & Johnson, M. S., 2014, I: PLoS ONE. 9, 10, s. 1–14

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  50 Citeringar (Scopus)

  17 Nedladdningar (Pure)