المؤلفون: Anna R. Mäkelä, Hasan Uğurlu, Liina Hannula, Ravi Kant, Petja Salminen, Riku Fagerlund, Sanna Mäki, Anu Haveri, Tomas Strandin, Lauri Kareinen, Jussi Hepojoki, Suvi Kuivanen, Lev Levanov, Arja Pasternack, Rauno A. Naves, Olli Ritvos, Pamela Österlund, Tarja Sironen, Olli Vapalahti, Anja Kipar, Juha T. Huiskonen, Ilona Rissanen, Kalle Saksela

المصدر: Nature Communications, Vol 14, Iss 1, Pp 1-12 (2023)

مصطلحات موضوعية: Science

وصف الملف: electronic resource

Relation: https://doaj.org/toc/2041-1723

URL الوصول: https://doaj.org/article/326654b56d2c4bd89b56074f0855fd2f

المؤلفون: Zhe Zhao, Riku Fagerlund, Helena Tossavainen, Kristina Hopfensperger, Rishikesh Lotke, Smitha Srinivasachar Badarinarayan, Frank Kirchhoff, Perttu Permi, Kei Sato, Daniel Sauter, Kalle Saksela

المصدر: PLoS Pathogens, Vol 17, Iss 11, p e1009728 (2021)

مصطلحات موضوعية: Immunologic diseases. Allergy, RC581-607, Biology (General), QH301-705.5

وصف الملف: electronic resource

Relation: https://doaj.org/toc/1553-7366; https://doaj.org/toc/1553-7374

URL الوصول: https://doaj.org/article/1318f37ecbe84d2aabcfcf4234f5b6b8

المؤلفون: Leena Ylösmäki, Riku Fagerlund, Inka Kuisma, Ilkka Julkunen, Kalle Saksela

المصدر: Viruses, Vol 8, Iss 4, p 101 (2016)

مصطلحات موضوعية: NS1, influenza A virus, SH3 domain, Crk, virus-host interaction, Microbiology, QR1-502

وصف الملف: electronic resource

Relation: http://www.mdpi.com/1999-4915/8/4/101; https://doaj.org/toc/1999-4915

URL الوصول: https://doaj.org/article/a46ef7cb23a341bdbf5ea4594ae47f39

المؤلفون: Zhe Zhao (157204), Riku Fagerlund (11707983), Helena Tossavainen (198209), Kristina Hopfensperger (824159), Rishikesh Lotke (9549926), Smitha Srinivasachar Badarinarayan (11707986), Frank Kirchhoff (94157), Perttu Permi (150487), Kei Sato (493447), Daniel Sauter (109619), Kalle Saksela (153572)

مصطلحات موضوعية: Biochemistry, Medicine, Genetics, Molecular Biology, Evolutionary Biology, Immunology, Developmental Biology, Infectious Diseases, Virology, simian immunodeficiency viruses, side chain compositions, highly conserved arginine, eastern chimpanzee subspecies, cellular protein kinases, aforementioned two classes, tyrosine kinase hck, combining structural analyses, nef residues 83, accessory protein nef, several distinct r, functional evolutionary intermediate, div >< p, ), clamp design principles, 1 nef activates, sh3 domain binding, sh3 domain, sh3 binding, structural basis, kinase deregulation

Relation: https://figshare.com/articles/journal_contribution/One-hundred_ns_all-atom_molecular_dynamics_simulations_show_that_stabilization_of_R77_side_chain_provided_by_the_R-clamp_in_the_wild-type_complex_could_be_reproduced_by_Met_Ile_and_Trp_in_the_A83M_Y120I_double_mutant_/17017374

الاتاحة: https://doi.org/10.1371/journal.ppat.1009728.s004

المؤلفون: Zhe Zhao (157204), Riku Fagerlund (11707983), Helena Tossavainen (198209), Kristina Hopfensperger (824159), Rishikesh Lotke (9549926), Smitha Srinivasachar Badarinarayan (11707986), Frank Kirchhoff (94157), Perttu Permi (150487), Kei Sato (493447), Daniel Sauter (109619), Kalle Saksela (153572)

مصطلحات موضوعية: Biochemistry, Medicine, Genetics, Molecular Biology, Evolutionary Biology, Immunology, Developmental Biology, Infectious Diseases, Virology, simian immunodeficiency viruses, side chain compositions, highly conserved arginine, eastern chimpanzee subspecies, cellular protein kinases, aforementioned two classes, tyrosine kinase hck, combining structural analyses, nef residues 83, accessory protein nef, several distinct r, functional evolutionary intermediate, div >< p, ), clamp design principles, 1 nef activates, sh3 domain binding, sh3 domain, sh3 binding, structural basis, kinase deregulation

Relation: https://figshare.com/articles/journal_contribution/Contour_plots_illustrating_cell_surface_CD4_expression_and_HIV-1_Nef_transduction_GFP_levels_/17017362

الاتاحة: https://doi.org/10.1371/journal.ppat.1009728.s001

المؤلفون: Zhe Zhao (157204), Riku Fagerlund (11707983), Helena Tossavainen (198209), Kristina Hopfensperger (824159), Rishikesh Lotke (9549926), Smitha Srinivasachar Badarinarayan (11707986), Frank Kirchhoff (94157), Perttu Permi (150487), Kei Sato (493447), Daniel Sauter (109619), Kalle Saksela (153572)

مصطلحات موضوعية: Biochemistry, Medicine, Genetics, Molecular Biology, Evolutionary Biology, Immunology, Developmental Biology, Infectious Diseases, Virology, simian immunodeficiency viruses, side chain compositions, highly conserved arginine, eastern chimpanzee subspecies, cellular protein kinases, aforementioned two classes, tyrosine kinase hck, combining structural analyses, nef residues 83, accessory protein nef, several distinct r, functional evolutionary intermediate, div >< p, ), clamp design principles, 1 nef activates, sh3 domain binding, sh3 domain, sh3 binding, structural basis, kinase deregulation

Relation: https://figshare.com/articles/journal_contribution/Contour_plots_illustrating_cell_surface_CD4_expression_and_SIVcpz_Nef_transduction_GFP_levels_/17017371

الاتاحة: https://doi.org/10.1371/journal.ppat.1009728.s003

المؤلفون: Zhe Zhao (157204), Riku Fagerlund (11707983), Helena Tossavainen (198209), Kristina Hopfensperger (824159), Rishikesh Lotke (9549926), Smitha Srinivasachar Badarinarayan (11707986), Frank Kirchhoff (94157), Perttu Permi (150487), Kei Sato (493447), Daniel Sauter (109619), Kalle Saksela (153572)

مصطلحات موضوعية: Biochemistry, Medicine, Genetics, Molecular Biology, Evolutionary Biology, Immunology, Developmental Biology, Infectious Diseases, Virology, simian immunodeficiency viruses, side chain compositions, highly conserved arginine, eastern chimpanzee subspecies, cellular protein kinases, aforementioned two classes, tyrosine kinase hck, combining structural analyses, nef residues 83, accessory protein nef, several distinct r, functional evolutionary intermediate, div >< p, ), clamp design principles, 1 nef activates, sh3 domain binding, sh3 domain, sh3 binding, structural basis, kinase deregulation

Relation: https://figshare.com/articles/journal_contribution/Role_of_the_R-clamp_in_Nef-mediated_enhancement_of_virion_infectivity_/17017383

الاتاحة: https://doi.org/10.1371/journal.ppat.1009728.s006

المؤلفون: Zhe Zhao (157204), Riku Fagerlund (11707983), Helena Tossavainen (198209), Kristina Hopfensperger (824159), Rishikesh Lotke (9549926), Smitha Srinivasachar Badarinarayan (11707986), Frank Kirchhoff (94157), Perttu Permi (150487), Kei Sato (493447), Daniel Sauter (109619), Kalle Saksela (153572)

مصطلحات موضوعية: Biochemistry, Medicine, Genetics, Molecular Biology, Evolutionary Biology, Immunology, Developmental Biology, Infectious Diseases, Virology, simian immunodeficiency viruses, side chain compositions, highly conserved arginine, eastern chimpanzee subspecies, cellular protein kinases, aforementioned two classes, tyrosine kinase hck, combining structural analyses, nef residues 83, accessory protein nef, several distinct r, functional evolutionary intermediate, div >< p, ), clamp design principles, 1 nef activates, sh3 domain binding, sh3 domain, sh3 binding, structural basis, kinase deregulation

Relation: https://figshare.com/articles/journal_contribution/Role_of_R-clamp_residues_83_120_in_intracellular_Hck-Nef_complex_formation_/17017377

الاتاحة: https://doi.org/10.1371/journal.ppat.1009728.s005

المؤلفون: Helena Tossavainen, Hasan Uğurlu, Mikael Karjalainen, Maarit Hellman, Lina Antenucci, Riku Fagerlund, Kalle Saksela, Perttu Permi

المساهمون: University of Helsinki, Department of Virology, HUSLAB, Kalle Saksela / Principal Investigator, Infection Biology Research Program

مصطلحات موضوعية: DYNAMICS, PROLINE-RICH PEPTIDES, virukset, PROTEINS, viruses, HTLV-1 Gag, Ligands, EVOLUTIONARY CONSERVATION, alfavirukset, src Homology Domains, HIGH-AFFINITY, retrovirukset, DOMAIN, Structural Biology, BINDING, Animals, Horses, Molecular Biology, soluviestintä, 11832 Microbiology and virology, Alanine, Binding Sites, PXXP MOTIFS, isothermal titration calorimetry, SH3, solution NMR spectroscopy, EEEV nsP3, HIV-1, 1182 Biochemistry, cell and molecular biology, proteiinit, CHEMICAL-SHIFTS, 3111 Biomedicine, Peptides, SNX9, Protein Binding

وصف الملف: application/pdf; 828-839.e6; fulltext

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a0db7f8e0919c02f066884eeaeb7d775
http://hdl.handle.net/10138/346308

المؤلفون: Anna R. Mäkelä, Hasan Uğurlu, Liina Hannula, Petja Salminen, Ravi Kant, Riku Fagerlund, Anu Haveri, Tomas Strandin, Lauri Kareinen, Jussi Hepojoki, Lev Levanov, Arja Pasternack, Rauno A. Naves, Olli Ritvos, Pamela Österlund, Tarja Sironen, Olli Vapalahti, Anja Kipar, Juha T. Huiskonen, Ilona Rissanen, Kalle Saksela

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_________::24e74811f49ed4a374d136c5d4502172
https://doi.org/10.21203/rs.3.rs-1196079/v1

المؤلفون: Kristina Hopfensperger, Kalle Saksela, Kei Sato, Daniel Sauter, Rishikesh Lotke, Zhe Zhao, Perttu Permi, Helena Tossavainen, Riku Fagerlund, Smitha Srinivasachar Badarinarayan, Frank Kirchhoff

المساهمون: Department of Virology, HUSLAB, Kalle Saksela / Principal Investigator, Infection Biology Research Program

المصدر: PLoS Pathogens, Vol 17, Iss 11, p e1009728 (2021)
PLoS Pathogens

مصطلحات موضوعية: RNA viruses, virukset, viruses, Simian Acquired Immunodeficiency Syndrome, HIV Infections, Pathology and Laboratory Medicine, SH3 domain, White Blood Cells, Immunodeficiency Viruses, Animal Cells, Medicine and Health Sciences, Biology (General), Mammals, Genetics, 11832 Microbiology and virology, 0303 health sciences, Kinase, 030302 biochemistry & molecular biology, Eukaryota, virus diseases, Transfection, 3. Good health, SIV, Medical Microbiology, Viral Pathogens, Viral evolution, Viruses, Vertebrates, Proto-Oncogene Proteins c-hck, Apes, Simian Immunodeficiency Virus, Pathogens, Cellular Types, Tyrosine kinase, Research Article, Primates, kinaasit, Evolutionary Immunology, Lineage (genetic), QH301-705.5, Immune Cells, Immunology, evoluutio, Biology, Research and Analysis Methods, HIV-tartunta, Microbiology, Viral Evolution, Evolution, Molecular, src Homology Domains, 03 medical and health sciences, Virology, Retroviruses, Animals, Humans, Luciferase, Amino Acid Sequence, nef Gene Products, Human Immunodeficiency Virus, Chimpanzees, Molecular Biology Techniques, Microbial Pathogens, Molecular Biology, 030304 developmental biology, Evolutionary Biology, Blood Cells, Sequence Homology, Amino Acid, Macrophages, Lentivirus, Organisms, Biology and Life Sciences, HIV, Cell Biology, RC581-607, Organismal Evolution, 3121 General medicine, internal medicine and other clinical medicine, Microbial Evolution, Amniotes, HIV-1, Parasitology, Salt bridge, proteiinit, Immunologic diseases. Allergy, Zoology

وصف الملف: application/pdf; fulltext

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::565fd13bb0bcf44198b041bbb8f3bb4a
http://hdl.handle.net/10138/341050

المؤلفون: Helena Tossavainen, Perttu Permi, Riku Fagerlund, Daniel Sauter, Frank Kirchhoff, Kalle Saksela, Zhe Zhao

مصطلحات موضوعية: Genetics, chemistry.chemical_classification, 0303 health sciences, Lineage (genetic), Kinase, viruses, 030302 biochemistry & molecular biology, Human immunodeficiency virus (HIV), virus diseases, Biology, medicine.disease_cause, SH3 domain, Amino acid, 03 medical and health sciences, chemistry, medicine, Salt bridge, Binding site, Tyrosine kinase, 030304 developmental biology

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_________::88e67c8bb0a268d88fd73856f3b24e4c
https://doi.org/10.1101/2021.06.22.449400

المؤلفون: Kalle Saksela, Zhe Zhao, Andreas Baur, Riku Fagerlund

المصدر: J Virol

مصطلحات موضوعية: MAPK/ERK pathway, THP-1 Cells, Immunology, HIV Infections, ADAM17 Protein, Biology, Microbiology, Extracellular Vesicles, 03 medical and health sciences, 0302 clinical medicine, Immune system, Virology, Humans, Viral Regulatory and Accessory Proteins, Secretion, nef Gene Products, Human Immunodeficiency Virus, Kinase activity, Protein kinase A, 030304 developmental biology, 0303 health sciences, Unconventional protein secretion, Kinase, virus diseases, Virus-Cell Interactions, 3. Good health, Proto-Oncogene Proteins c-raf, HEK293 Cells, 030220 oncology & carcinogenesis, Insect Science, HIV-2, HIV-1, Proto-Oncogene Proteins c-hck, Cancer research, Simian Immunodeficiency Virus, Tyrosine kinase

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8af7841851c62acd62b00c359f0134bf
https://doi.org/10.1128/jvi.00180-21

المؤلفون: Zhe Zhao (157204), Riku Fagerlund (11707983), Helena Tossavainen (198209), Kristina Hopfensperger (824159), Rishikesh Lotke (9549926), Smitha Srinivasachar Badarinarayan (11707986), Frank Kirchhoff (94157), Perttu Permi (150487), Kei Sato (493447), Daniel Sauter (109619), Kalle Saksela (153572)

مصطلحات موضوعية: Biochemistry, Medicine, Genetics, Molecular Biology, Evolutionary Biology, Immunology, Developmental Biology, Infectious Diseases, Virology, simian immunodeficiency viruses, side chain compositions, highly conserved arginine, eastern chimpanzee subspecies, cellular protein kinases, aforementioned two classes, tyrosine kinase hck, combining structural analyses, nef residues 83, accessory protein nef, several distinct r, functional evolutionary intermediate, div >< p, ), clamp design principles, 1 nef activates, sh3 domain binding, sh3 domain, sh3 binding, structural basis, kinase deregulation

Relation: https://figshare.com/articles/figure/Hck-activating_potential_of_selected_HIV-1_Nefs_/17017392

الاتاحة: https://doi.org/10.1371/journal.ppat.1009728.g001

المؤلفون: Zhe Zhao (157204), Riku Fagerlund (11707983), Helena Tossavainen (198209), Kristina Hopfensperger (824159), Rishikesh Lotke (9549926), Smitha Srinivasachar Badarinarayan (11707986), Frank Kirchhoff (94157), Perttu Permi (150487), Kei Sato (493447), Daniel Sauter (109619), Kalle Saksela (153572)

مصطلحات موضوعية: Biochemistry, Medicine, Genetics, Molecular Biology, Evolutionary Biology, Immunology, Developmental Biology, Infectious Diseases, Virology, simian immunodeficiency viruses, side chain compositions, highly conserved arginine, eastern chimpanzee subspecies, cellular protein kinases, aforementioned two classes, tyrosine kinase hck, combining structural analyses, nef residues 83, accessory protein nef, several distinct r, functional evolutionary intermediate, div >< p, ), clamp design principles, 1 nef activates, sh3 domain binding, sh3 domain, sh3 binding, structural basis, kinase deregulation

Relation: https://figshare.com/articles/figure/Fig_2_-/17017398

الاتاحة: https://doi.org/10.1371/journal.ppat.1009728.g002

المؤلفون: Zhe Zhao (157204), Riku Fagerlund (11707983), Helena Tossavainen (198209), Kristina Hopfensperger (824159), Rishikesh Lotke (9549926), Smitha Srinivasachar Badarinarayan (11707986), Frank Kirchhoff (94157), Perttu Permi (150487), Kei Sato (493447), Daniel Sauter (109619), Kalle Saksela (153572)

مصطلحات موضوعية: Biochemistry, Medicine, Genetics, Molecular Biology, Evolutionary Biology, Immunology, Developmental Biology, Infectious Diseases, Virology, simian immunodeficiency viruses, side chain compositions, highly conserved arginine, eastern chimpanzee subspecies, cellular protein kinases, aforementioned two classes, tyrosine kinase hck, combining structural analyses, nef residues 83, accessory protein nef, several distinct r, functional evolutionary intermediate, div >< p, ), clamp design principles, 1 nef activates, sh3 domain binding, sh3 domain, sh3 binding, structural basis, kinase deregulation

Relation: https://figshare.com/articles/figure/The_arginine_clamp_/17017404

الاتاحة: https://doi.org/10.1371/journal.ppat.1009728.g003

المؤلفون: Zhe Zhao (157204), Riku Fagerlund (11707983), Helena Tossavainen (198209), Kristina Hopfensperger (824159), Rishikesh Lotke (9549926), Smitha Srinivasachar Badarinarayan (11707986), Frank Kirchhoff (94157), Perttu Permi (150487), Kei Sato (493447), Daniel Sauter (109619), Kalle Saksela (153572)

مصطلحات موضوعية: Biochemistry, Medicine, Genetics, Molecular Biology, Evolutionary Biology, Immunology, Developmental Biology, Infectious Diseases, Virology, simian immunodeficiency viruses, side chain compositions, highly conserved arginine, eastern chimpanzee subspecies, cellular protein kinases, aforementioned two classes, tyrosine kinase hck, combining structural analyses, nef residues 83, accessory protein nef, several distinct r, functional evolutionary intermediate, div >< p, ), clamp design principles, 1 nef activates, sh3 domain binding, sh3 domain, sh3 binding, structural basis, kinase deregulation

Relation: https://figshare.com/articles/figure/Role_of_residue_83_120_pairing_in_the_HIV-1_N_Nef_R-clamp_/17017410

الاتاحة: https://doi.org/10.1371/journal.ppat.1009728.g004

المؤلفون: Zhe Zhao (157204), Riku Fagerlund (11707983), Helena Tossavainen (198209), Kristina Hopfensperger (824159), Rishikesh Lotke (9549926), Smitha Srinivasachar Badarinarayan (11707986), Frank Kirchhoff (94157), Perttu Permi (150487), Kei Sato (493447), Daniel Sauter (109619), Kalle Saksela (153572)

مصطلحات موضوعية: Biochemistry, Medicine, Genetics, Molecular Biology, Evolutionary Biology, Immunology, Developmental Biology, Infectious Diseases, Virology, simian immunodeficiency viruses, side chain compositions, highly conserved arginine, eastern chimpanzee subspecies, cellular protein kinases, aforementioned two classes, tyrosine kinase hck, combining structural analyses, nef residues 83, accessory protein nef, several distinct r, functional evolutionary intermediate, div >< p, ), clamp design principles, 1 nef activates, sh3 domain binding, sh3 domain, sh3 binding, structural basis, kinase deregulation

Relation: https://figshare.com/articles/figure/Comprehensive_testing_of_R-clamp_residue_pairing_rules_by_mutagenesis_of_SF2-Nef_/17017425

الاتاحة: https://doi.org/10.1371/journal.ppat.1009728.g006

المؤلفون: Zhe Zhao (157204), Riku Fagerlund (11707983), Helena Tossavainen (198209), Kristina Hopfensperger (824159), Rishikesh Lotke (9549926), Smitha Srinivasachar Badarinarayan (11707986), Frank Kirchhoff (94157), Perttu Permi (150487), Kei Sato (493447), Daniel Sauter (109619), Kalle Saksela (153572)

مصطلحات موضوعية: Biochemistry, Medicine, Genetics, Molecular Biology, Evolutionary Biology, Immunology, Developmental Biology, Infectious Diseases, Virology, simian immunodeficiency viruses, side chain compositions, highly conserved arginine, eastern chimpanzee subspecies, cellular protein kinases, aforementioned two classes, tyrosine kinase hck, combining structural analyses, nef residues 83, accessory protein nef, several distinct r, functional evolutionary intermediate, div >< p, ), clamp design principles, 1 nef activates, sh3 domain binding, sh3 domain, sh3 binding, structural basis, kinase deregulation

Relation: https://figshare.com/articles/figure/Putative_cross-species_transmission_and_evolution_of_R-clamp_categories_/17017443

الاتاحة: https://doi.org/10.1371/journal.ppat.1009728.g009

المؤلفون: Zhe Zhao (157204), Riku Fagerlund (11707983), Helena Tossavainen (198209), Kristina Hopfensperger (824159), Rishikesh Lotke (9549926), Smitha Srinivasachar Badarinarayan (11707986), Frank Kirchhoff (94157), Perttu Permi (150487), Kei Sato (493447), Daniel Sauter (109619), Kalle Saksela (153572)

مصطلحات موضوعية: Biochemistry, Medicine, Genetics, Molecular Biology, Evolutionary Biology, Immunology, Developmental Biology, Infectious Diseases, Virology, simian immunodeficiency viruses, side chain compositions, highly conserved arginine, eastern chimpanzee subspecies, cellular protein kinases, aforementioned two classes, tyrosine kinase hck, combining structural analyses, nef residues 83, accessory protein nef, several distinct r, functional evolutionary intermediate, div >< p, ), clamp design principles, 1 nef activates, sh3 domain binding, sh3 domain, sh3 binding, structural basis, kinase deregulation

Relation: https://figshare.com/articles/figure/R-clamp_architecture_of_SIVcpz_Nef_proteins_/17017416

الاتاحة: https://doi.org/10.1371/journal.ppat.1009728.g005