About Instruct-FI


Instruct is a pan-European research infrastructure in structural biology, making high-end technologies and methods available to users.

  • Provides access to innovative equipment to industrial & academic scientists worldwide
  • Delivers training and workshops by internationally recognized experts
  • Provides funding for students - Internships of 6-month in Instruct Centres
  • Provides funding for Pilot Projects
  • Acts as a Structural Biology Hub fostering collaborative science and driving innovations

Finland is in the process of applying membership in Instruct-ERIC that is one of the successful operators at the European Strategy Forum on Research Infrastructures (ESFRI). Instruct-ERIC is a landmark European Research Infrastructure on the ESFRI Roadmap (2016). It provides peer-reviewed access to the core structural biology technologies, develops the next generation of instrumentation in partnership with industry, and provides training for structural biologists in cutting edge techniques. Accesses are provided at the scientifically evaluated and accepted Instruct-ERIC Centres that are located across the Europe. Instruct-ERIC member states host Instruct Centres that provide infrastructure and expertise supporting the mission and objectives of Instruct-ERIC. In Finland, concomitantly with the membership application Ministry of Education and Culture is requesting that Instruct Centre Finland would be recognized as a distributed Instruct-ERIC Centre.

Instruct-FI,  Integrated Structural Cell Biology in Finland

Instruct-HiLIFE is part of the national structural cell biology network Instruct-FI. Instruct-FI promotes training and state-of-the-art research in protein production and purification; biomolecular complex purification (Biocomplex); high resolution cryo-electron microscopy (cryo-EM); nuclear magnetic resonance (NMR); native mass spectrometry (MS); structural bioinformatics; and X-ray crystallography (X-ray). Instruct-FI activities are distributed in six universities (Helsinki, Oulu, Turku, Åbo Academi, Eastern Finland, and Tampere), and coordinated by the University of Helsinki (Director Professor Sarah Butcher, Coordinator Adjunct Professor Hanna Oksanen). Instruct-FI is included on the Finnish Research Infrastructure 2014-2020 roadmap.

Instruct-FI publications 2013 onwards (November, 2018 updated)

Year 2013 (59)                                                                                                                         

  1. Anantharajan, J., Koski, M.K., Kursula, P., Hieta, R., Bergmann, U., Myllyharju, J., and Wierenga, R.K. (2013) The unique structural motifs for substrate binding and dimerization of the alfa subunit of collagen prolyl 4-hydroxylase. Structure, 21, 2107-18.
  2. Anisimov A, Leppanen V-M, Tvorogov D, Zarkada G, Jeltsch M, Holopainen T, et al. The Basis for the Distinct Biological Activities of Vascular Endothelial Growth Factor Receptor-1 Ligands. Sci Signal. 2013 Jul 2;6(282):ra52.
  3. Anisimov A, Tvorogov D, Alitalo A, Leppänen V-M, An Y, Han EC, et al. Vascular Endothelial Growth Factor-Angiopoietin Chimera With Improved Properties for Therapeutic Angiogenesis. Clinical Perspective. Circulation. 2013 Jan 29;127(4):424–34.
  4. Aranko, A. S., Oeemig, J. S., Iwaï, H. (2013) Structural basis for protein trans-splicing by a Bacterial Intein-Like domain: protein ligation without nucleophilic side-chains. FEBS J. 280, 3256-3269
  5. Aranko, A. S., Oeemig, J. S., Kajander, T., Iwaï H. (2013) Intermolecular domain swapping induces intein-mediated protein alternative splicing. Nat. Chem. Biol. 9, 616–622
  6. Atanasova NS, Pietilä M, and Oksanen HM. 2013. Diverse antimicrobial interactions of halophilic archaea and bacteria extend over geographical distances and cross the domain barrier. MicrobiologyOpen. 2: 811-825.
  7. Badia-Martinez D, Oksanen HM, Stuart, DI, and Abrescia NGA. 2013. Combined approaches to study virus structures. In: Structure and Physics of Viruses: An intergrated Textbook, Subcellular Biochemistry 68. Ed: Mateu MG. Springer. pp. 203-246.
  8. Battula, P., Dubnovitsky, A.P. and Papageorgiou, A.C. (2013). Structural basis of L-phosphoserine binding to phosphoserine aminotransferase. Acta Cryst. D 69, 804-811.
  9. Bhattacharjee, A., Oeemig, J. S., Kolodziejczyk, R., Meri, T., Kajander, T., Iwaï, H., Jokiranta, T. S., Goldman, A. (2013) Structural basis for complement evasion by Lyme disease pathogen Borrelia burgdorferi. J. Biol. Chem. 288, 18685-18695
  10. Bligt-Lindén E, Arunachalam R, Parkash V, Salminen TA. (2013) Structural comparison of the active site channels in rodent and primate vascular adhesion protein-1. Journal of Neural Transmission. 120(6):947-50.
  11. Bligt-Lindén E, Pihlavisto M, Szatmári I, Otwinowski Z, Smith DJ, Lázár L, Fülöp F, Salminen TA. (2013) Novel Pyridazinone Inhibitors for Vascular Adhesion Protein-1 (VAP-1): Old target - New Inhibition Mode. Journal of Medicinal Chemistry. 56(24):9837-48.
  12. Blikstad C, Dahlström KM, Salminen TA, Widersten M (2013) Stereoselective Oxidation of Aryl-Substituted Vicinal Diols into Chiral α-Hydroxy Aldehydes by Re-Engineered Propanediol Oxidoreductase ACS Catalysis. 3:3016–3025.
  13. Carmel D*, Dahlström KM*, Holmström M, Allahverdiyeva Y, Battchikova N, Aro EM, Salminen TA*, Mulo P.* (2013) Structural model, physiology and regulation of Slr0006 in Synechocystis PCC 6803. Archives of Microbiology. 195(10-11):727-36.
  14. Fewer, D. P., Jokela, J., Paukku, E., Österholm, J., Wahlsten, M., Permi, P., Aitio, O., Rouhiainen, L., Gomez-Saez, G. V., Sivonen, K. (2013) New Structural Variants of Aeruginosin Produced by the Toxic Bloom Forming Cyanobacterium Nodularia spumigena. PLoS ONE 8(9): e73618. doi: 10.1371/journal.pone.0073618
  15. Fukao, T., Aoyama, Y., Murase, K., Hori, T., Harijan, R.K., Wierenga, R.K., Boneh, A.,and Kondo, N. (2013) Development of MLPA for human ACAT1 gene and identification of a heterozygous Alu-mediated deletion of exons 3 and 4 in a patient with mitochondrial acetoacetyl-CoA thiolase (T2) deficiency. Molecular Genetics and Metabolism, 110, 184-187.
  16. Haikarainen, T., Koivunen, J., Narwal, M., Venkannagari, H., Obaji, E., Joensuu, P., Pihlajaniemi, T. & Lehtiö, L. (2013) Para substituted 2-phenyl-3,4-dihydroquinazolin-4-ones as potent and selective tankyrase inhibitors. ChemMedChem 8:1978-1985.
  17. Haikarainen, T., Loimaranta, V., Prieto-Lopez, C., Battula, P., Finne, J. & Papageorgiou, A.C. (2013). Expression, purification and crystallization of the C-terminal LRR domain of Streptococcus pyogenes 0843 protein. Acta Cryst F69, 559-561.
  18. Haikarainen, T., Venkannagari, H., Narwal, M., Obaji, E., Lee, H.W., Nkizinkiko, Y. & Lehtiö, L. (2013) Structural basis and selectivity of tankyrase inhibition by a Wnt signaling inhibitor WIKI4. PloS One 8:e65404.
  19. Han H, Myllykoski M, Ruskamo S, Wang C, Kursula P. Myelin-specific proteins: a structurally diverse group of membrane-interacting molecules. Biofactors. 2013 May-Jun;39(3):233-41.
  20. Hanhijärvi KJ, Žiedaitė G, Pietilä MK, Haeggström E, and Bamford DH. 2013. DNA ejection from an archaeal virus - a single-molecule approach. Biophys. J. 104:2264-2272.
  21. Happonen LJ, Oksanen E, Liljeroos L, Goldman A, Kajander T, Butcher SJ. (2013) The structure of the NTPase that powers DNA packaging into Sulfolobus turreted icosahedral virus 2. J Virol. 87(15):8388-98.
  22. Harijan, R.K., Kiema, T.R., Karjalainen, M.P., Janardan, N., Murthy, M.R., Weiss. M.S., Michels, P.A., Wierenga, R.K. (2013) Crystal structures of SCP2-thiolases of Trypanosomatidae, human pathogens causing widespread tropical diseases: the importance for catalysis of the cysteine of the unique HDCF loop. Biochem J., 455, 119-130.
  23. Hedegaard, S., Nilsson, C., Laurinmäki, P., Butcher, S.J., Urtti, A., Yaghmur, A. (2013) Nanostructured aqueous dispersions of citrem interacting with lipids and PEGylated lipids. RSC Advances 3:24576–24585.
  24. Hetzel,U., Sironen,T., Laurinmäki, P., Liljeroos, L., Patjas, A., Henttonen, H., Vaheri, A., Artelt, A., Kipar, A., Butcher, S.J., Vapalahti O., Hepojoki J. (2013) Isolation, identification and characterization of novel Arenaviruses, the etiological agent of Boid Inclusion Body Disease. J. Virol. 87:20 10918-10935
  25. Hirvonen, S, Karesoja, M., Karjalainen, E., Hietala, S., Laurinmäki, P., Vesanen, E., Butcher, S.J., Tenhu, H. (2013) Colloidal properties and gelation of aqueous dispersions of conductive poly(benzimidazobenzophenanthroline) derivatives. Polymer 54:694-701
  26. Hulmi JJ, Oliveira BM, Silvennoinen M, Hoogaars WM, Pasternack A, Kainulainen H, Ritvos O. 2013. Exercise restores decreased physical activity levels and increases markers of autophagy and oxidative capacity in myostatin/activin-blocked mdx mice. Am J Physiol Endocrinol Metab. 305:E171-82.
  27. Hulmi JJ, Oliveira BM, Silvennoinen M, Hoogaars WMH, Ma H, Pierre P, Pasternack A, Kainulainen H, Ritvos O. 2013. Muscle protein synthesis, mTORC1/MAPK/Hippo signaling, and capillary density are altered by blocking of myostatin and activins. Am J Physiol Endocrinol Metab. 304: E41–E50.
  28. Jendrossek, D., Hermawan, S., Subedi, B. & Papageorgiou, A.C. (2013). Biochemical analysis and structure determination of poly(3-hydroxybutyrate) (PHB) depolymerase PhaZ7 muteins reveal the PHB binding site and details of substrate-enzyme interactions. Mol. Microbiol. 90, 649-664.
  29. Kajander T, Kellosalo J, Goldman A.(2013) Inorganic pyrophosphatases: one substrate, three mechanisms. FEBS Lett. 27;587(13):1863-9.
  30. Karjalainen, E., Chenna, N., Laurinmäki, P., Butcher, S.J., Tenhu H. (2013) Diblock copolymers consisting of polymerized ionic liquid and poly(N-isopropylacrylamide). Effects of PNIPAM block length and counter ion on self-assembling and thermal properties.Polym.Chem. 4:1014-1024
  31. Kasaragod, P., Schmitz, W., Hiltunen, J.K., Wierenga, R.K. (2013) The isomerase and hydratase reaction mechanism of the crotonase active site of the multifunctional enzyme (type-1), as deduced from structures of complexes with 3S-hydroxy-acyl-CoA.FEBS J., 280,3160-3175.
  32. Kellosalo J, Kajander T, Honkanen R, Goldman A. Crystallization and preliminary X-ray analysis of membrane-bound pyrophosphatases. Mol Membr Biol. 2013 Feb;30(1):64-74.
  33. Leikoski, N., Liu, L., Jokela, J., Wahlsten, M., Gugger, M., Calteau, A., Permi, P., Kerfeld, C. A., Sivonen, K., Fewer, D. P. (2013) Genome mining expands the chemical diversity of the cyanobactin family to include highly modified linear peptides. Chem Biol 2013, 1033–1043, doi: 10.1016/j.chembiol.2013.06.015
  34. Leppänen VM, Tvorogov D, Kisko K, Prota AE, Jeltsch M, Anisimov A, Markovic-Mueller S, Stuttfeld E, Goldie KN, Ballmer-Hofer K, Alitalo K. Structural and mechanistic insights into VEGF receptor 3 ligand binding and activation. Proc Natl Acad Sci U S A. 2013 Aug 6;110(32):12960-5.
  35. Leppiniemi J, Meir A, Kähkönen N, Kukkurainen S, Määttä JA, Ojanen M, Jänis J, Kulomaa MS, Livnah O, Hytönen VP. 2013. The highly dynamic oligomeric structure of bradavidin II is unique among avidin proteins. Protein Sci.  Jul;22(7):980-94.
  36. Maksimainen MM, Lampio A, Mertanen M, Turunen O & Rouvinen J: The crystal structure of acidic b-galactosidase from Aspergillus oryzae. Int. J. Biol. Macrom. 60 (2013) 109-115.Hakulinen N, Gasparetti C, Kaljunen H, Kruus K & Rouvinen J: The crystal structure of an extracellular cathecol oxidase from the ascomycete fungus. J. Biol. Inorg. Chem. 18(2013) 917-929.
  37. Mikula KM, Kolodziejczyk R, Goldman A. Yersinia infection tools-characterization of structure and function of adhesins. Front Cell Infect Microbiol. 2013 Jan 8;2:169.
  38. Myllykoski M, Raasakka A, Lehtimäki M, Han H, Kursula I, Kursula P. Crystallographic analysis of the reaction cycle of 2',3'-cyclic nucleotide 3'-phosphodiesterase, a unique member of the 2H phosphoesterase family. J Mol Biol. 2013 Nov 15;425(22):4307-22.
  39. Narwal, M., Haikarainen, T., Fallarero, A., Vuorela, P.M. & Lehtiö, L. (2013) Screening and structural analysis of flavones inhibiting tankyrases. J. Med Chem. 56:3507-3517.
  40. Narwal, M., Koivunen, J., Haikarainen, T., Obaji, E., Legala, O., Venkannagari, H., Joensuu, P., Pihlajaniemi, T. & Lehtiö, L. (2013) Discovery of Tankyrase Inhibiting Flavones with Increased Potency and Isoenzyme Selectivity. J. Med Chem. 56:7880-7889.
  41. Nilsson, C., Barrios-Lopez, B., Kallinen, A., Laurinmӓki, P., Butcher, S.J., Raki, M., Bergstrӧm, K., Weng Larsen, S., Østergaard, J., Larsen, C., Urtti, A., Airaksinen, A., Yaghmur, A. (2013) SPECT/CT imaging of radiolabeled cubosomes and hexosomes for potential theranostic applications. Biomaterials 34:8491-8503
  42. Pakharukova N, Tuittila M, Zavialov A. (2013) Crystallization and sulfur SAD phasing of AggA, the major subunit of aggregative adherence fimbriae type I from the Escherichia coli strain that caused an outbreak of haemolytic-uraemic syndrome in Germany. Acta Crystallogr F69, 1389-1392
  43. Peralta B, Gil-Carton D, Castaño-Díez D, Bertin A, Boulogne C, Oksanen HM, Bamford DH, and Abrescia NGA. 2013. Mechanism of membranous tunnelling nanotube formation in viral genome delivery. PLoS Biol. 11: e1001667.
  44. Pietilä MK, Atanasova NS, Oksanen HM, and Bamford DH. 2013. Modified coat protein forms the flexible spindle-shaped virion of haloarchaeal virus His1. Environ. Microbiol. 15:1674-1686.
  45. Pietilä, M.K., Laurinmäki, P., Russell, D.A., Ko, C., Jacobs-Sera, D., Butcher, S.J., Bamford, D.H., Hendrix, R.W. (2013) Insights into head-tailed viruses infecting extremely halophilic archaea. J. Virol. 87:3248-3260
  46. Pietilä, M.K., Laurinmäki, P., Russell, D.A., Ko, C., Jacobs-Sera, D., Hendrix, R.W., Bamford, D.H., Butcher, S.J.. (2013) Structure of the archaeal head-tailed virus HSTV-1 completes the HK97-fold story. Proc. Natl. Acad. Sci. (USA) 110:10604-10609
  47. Pihlajamaa, T., Kajander, T., Knuuti, J., Horkka, K., Sharma, A., Permi, P. (2013) Structure of Plasmodium falciparum TRAP (thrombospondin-related anonymous protein) A domain highlights distinct features in apicomplexan von Willebrand factor A homologues. Biochemical J.450 (3) 469-476; DOI: 10.1042/BJ20121058
  48. Ravantti JJ, Bamford DH, and Stuart DI.2013. Automatic comparison and classification of protein structures. J. Struct. Biol. 183:47-56.
  49. Senčilo A, Jacobs-Sera D, Russell DA, Ko C-C, Bowman CA, Atanasova NS, Österlund E, Oksanen HM, Bamford DH, Hatfull GF, and Roine E, and Hendrix RW. 2013. Snapshot of haloarchaeal tailed virus genomes. RNA Biol. 10: 33-46.
  50. Sun X, Pirttimaa MJ, Bamford DH, and Poranen MM. 2013. Rescue of maturation off-pathway products in the assembly of Pseudomonas phage φ6. J. Virol. 87: 13279-13286.
  51. Tamminen JA, Parviainen V, Rönty M, Wohl AP, Murray L, Joenväärä S, Varjosalo M, Leppäranta O, Ritvos O, Sengle G, Renkonen R, Myllärniemi M, Koli K. 2013. Gremlin-1 associates with fibrillin microfibrils in vivo and regulates mesothelioma cell survival through transcription factor slug. Oncogenesis. 26;2:e66.
  52. Taskinen B, Zmurko J, Ojanen M, Kukkurainen S, Parthiban M, Määttä JA, Leppiniemi J, Jänis J, Parikka M, Turpeinen H, Rämet M, Pesu M, Johnson MS, Kulomaa MS, Airenne TT, Hytönen VP. 2013. Zebavidin--an avidin-like protein from zebrafish. PLoS One. Oct 24;8(10):e77207.
  53. Toivola J, Nikkanen L, Dahlström KM, Salminen TA, Lepistö A, Vignols F, Rintamäki E (2013) Overexpression of chloroplast NADPH-dependent thioredoxin reductase in Arabidopsis enhances leaf growth and elucidates in vivo function of reductase and thioredoxin domains. Frontiers in Plant Science. 4:389.
  54. Tossavainen H, Helppolainen SH, Määttä JA, Pihlajamaa T, Hytönen VP, Kulomaa MS, Permi P. 2013. Resonance assignments of the 56 kDa chimeric avidin in the biotin-bound and free forms. Biomol NMR Assign. 7(1):35-8.
  55. Venkannagari, H., Fallarero, A., Feijs, K.L., Lüscher, B. & Lehtiö, L. (2013) Activity-based assay for human mono-ADP-ribosyltransferases ARTD7/PARP15 and ARTD10/PARP10 aimed at screening and profiling inhibitors. Eur. J. Pharm. Sci. 49:148-156
  56. Venkatesan, R., Wierenga, R.K. (2013) Structure of mycobacterial -oxidation trifunctional enzyme reveals its altered assembly and putative substrate channeling pathway. American Chemical Society-Chemical Biology, 8, 1063-1075.
  57. Villefranc JA, Nicoli S, Bentley K, Jeltsch M, Zarkada G, Moore JC, et al. A truncation allele in vascular endothelial growth factor c reveals distinct modes of signaling during lymphatic and vascular development. Development. 2013;140(7):1497–506.
  58. Vitale R, Roine E, Bamford, DH, and Corcelli A. 2013. Lipid fingerprints of intact viruses by MALDI-TOF mass spectrometry. Biochim Biophys Acta. 1831: 872-879.
  59. Ylilauri M, Mattila E, Nurminen EM, Käpylä J, Niinivehmas SP, Määttä JA, Pentikäinen U, Ivaska J, Pentikäinen OT. 2013. Molecular mechanism of T-cell protein tyrosine phosphatase (TCPTP) activation by mitoxantrone. Biochim Biophys Acta. Oct;1834(10):1988-97.


Year 2014 (52)

  1. Anbazhagan, P., Harijan, R.K., Kiema, T.R., Janardan, N., Murthy, M.R.N., Michels, P.A.M., Juffer, A.H., Wierenga, R.K., (2014) Phylogenetic relationships and classification of thiolases and thiolase-like proteins of Mycobacterium tuberculosis and Mycobacterium smegmatis. Tuberculosis, 94, 405-412.
  2. Aranko, A. S., Oeemig, J. S., Zhou, D., Kajander, T., Wlodawer, A., Iwaï, H. (2014) Structure-based engineering and comparison of novel split inteins for protein ligation. Mol. Biosyst. 10 (5), 1023 - 1034
  3. Aranko, A. S., Wlodawer, A., Iwaï, H. (2014) Nature’s recipe for splitting inteins. Protein Eng. Des. Sel. 27(8), 263–271.
  4. Barrier E, Braz Fernandes FM, Bujan M, Feiters MC, Froideval A, Ghijsen J, Hase T, Hough MA, Jergel M, Jimenez I, Kajander T, Kikas A, Kokkinidis M, Kover L, Larsen HB, Lawson DM, Lawniczak-Jablonska K, Mariani C, Mikulik P, Monnier J,  Morera S, McGuinness C, Müller-Buschbaum P, Meedom Nielson M, Pietsch U, Tromp M, Simon M, Stangl J, Zanotti G. The benefit of the European User Community from transnational access to national radiation facilities. J Synchrotron Radiat. 2014 May;21(Pt 3):638-9.
  5. Blikstad C, Dahlström KM, Salminen TA, Widersten M. (2014) Substrate Scope and Selectivity in Offspring to an Enzyme Subjected to Directed Evolution. FEBS Journal. 281(10):2387-98.
  6. Dumont E, Jokipii-Lukkari S, Parkash V, Vuosku J, Sundström R, Nymalm Y, Sutela S, Taskinen K, Kallio PT, Salminen TA, Häggman H. (2014) Evolution, Three-Dimensional Model and Localization of Truncated Hemoglobin PttTrHb of Hybrid Aspen. PLoS One. 9(2):e88573.
  7. Edstam MM, Laurila M, Höglund A, Raman A, Dahlström KM, Salminen TA, Edqvist J, Blomqvist K (2014) Characterization of the GPI-anchored lipid transfer proteins in the moss Physcomitrella patens. Plant Physiology and Biochemistry. 75:55-69.
  8. Fukao, T., Akiba, K. , Goto M., Kuwayama, N., Morita, M., Hori, T., Aoyama, Y., Venkatesan, R., Wierenga, R., Moriyama, Y., Hashimoto, T, Usuda, N., Murayama, K., Ohtake, A., Hasegawa, Y., Shigematsu, Y., and Hasegawa, Y. (2014) The first case in Asia of 2-methyl-3-hydroxybutyryl-CoA dehydrogenase deficiency (HSD10 disease) with atypical presentation. Journal of Human Genetics, 59, 609-614.
  9. Haikarainen, T., Frioux, C., Zhnag, L.-Q-, Li, D.-C. & Papageorgiou, A.C. (2014) Crystal structure and biochemical characterization of a manganese superoxide dismutase from Chaetomium thermophilum. Biochim. Biophys. Acta 1844, 422-429
  10. Haikarainen, T., Narwal, M., Joensuu, P. & Lehtiö, L. (2014) Evaluation and Structural Basis for the inhibition of Tankyrases by PARP Inhibitors. ACS Med. Chem. Lett. 20:12-22.
  11. Hellman, M., Piirainen, H., Jaakola, V. P., Permi, P. (2014) Bridge over troubled proline: assignment of intrinsically disordered proteins using (HCA)CON(CAN)H and (HCA)N(CA)CO(N)H experiments concomitantly with HNCO and i(HCA)CO(CA)NH. J. Biomol. NMR 58: 49. doi:10.1007/s10858-013-9804-0
  12. Hong C, Oksanen HM, Liu X, Jakana J, Bamford DH, and Chiu W. 2014. A structural model of the genome packaging process in a membrane-containing double stranded DNA virus. PLoS Biol. 12:e1002024.
  13. Jeltsch M, Jha SK, Tvorogov D, Anisimov A, Leppänen V-M, Holopainen T, et al. CCBE1 Enhances Lymphangiogenesis via A Disintegrin and Metalloprotease With Thrombospondin Motifs-3–Mediated Vascular Endothelial Growth Factor-C Activation. Circulation. 2014 May 13;129(19):1962–71.
  14. Kiema, T.R,  Harijan, R.K.,  Strozyk, M.,  Fukao, T.,  Alexson, S., and  Wierenga, R.K. (2014) The crystal structure of human mitochondrial 3-ketoacyl-CoA thiolase (T1): insight into the reaction mechanism of its thiolase and thioesterase activities. Acta Crystallographica, D70, 3212-3225.
  15. Köhler M, Karner A, Leitner M, Hytönen VP, Kulomaa M, Hinterdorfer P, Ebner A. 2014. pH-dependent deformations of the energy landscape of avidin-like proteins investigated by single molecule force spectroscopy. Molecules. Aug 18;19(8):12531-46.
  16. Koho T, Koivunen MR, Oikarinen S, Kummola L, Mäkinen S, Mähönen AJ, Sioofy-Khojine A, Marjomäki V, Kazmertsuk A, Junttila I, Kulomaa MS, Hyöty H, Hytönen VP, Laitinen OH. 2014. Coxsackievirus B3 VLPs purified by ion exchange chromatography elicit strong immune responses in mice. Antiviral Res. Apr;104:93-101.
  17. Kokkola T, Suuronen T, Molnár F, Määttä JA, Salminen A, Jarho EM, Lahtela-Kakkonen M. 2014. AROS has a context-dependent effect on SIRT1. FEBS Lett. 2014 May 2;588(9):1523-8.
  18. Krupovic M, Bamford DH, Koonin EV. 2014. Conservation of major and minor jelly-roll capsid proteins in Polinton (Maverick) transposons suggests that they are bona fide viruses. Biol. Direct. 9:6
  19. Kukkurainen S, Määttä JA, Saeger J, Valjakka J, Vogel V, Hytönen VP. 2014. The talin-integrin interface under mechanical stress. Mol Biosyst. Dec;10(12):3217-28.
  20. Kurppa K, Hytönen VP, Nakari-Setälä T, Kulomaa MS, Linder MB. 2014. Molecular engineering of avidin and hydrophobin for functional self-assembling interfaces. Colloids Surf B Biointerfaces. Aug 1;120:102-9.
  21. Kursula P. Crystallographic snapshots of initial steps in the collapse of the calmodulin central helix. Acta Crystallogr D Biol Crystallogr. 2014 Jan;70(Pt 1):24-30.
  22. Lehtimäki N, Koskela MM, Dahlström KM, Pakula E, Lintala M, Scholz M, Hippler  M, Hanke GT, Rokka A, Battchikova N, Salminen TA, Mulo P. (2014) Posttranslational Modifications of ferredoxin-NADP+ oxidoreductase in Arabidopsis Chloroplasts. Plant Physiology. 166(4):1764-76.
  23. Liu, L., Jokela, J., Herfindal, L., Wahlsten, M., Sinkkonen, J., Permi, P., Fewer, D. P., Døskeland, S. O., Sivonen, K. (2014) 4-Methylproline Guided Natural Product Discovery: Co-Occurrence of 4-Hydroxy- and 4-Methylprolines in Nostoweipeptins and Nostopeptolides. ACS Chem. Biol. 9 (11), 2646-2655 DOI: 10.1021/cb500436p
  24. Liu, L., Jokela, J., Wahlsten, M., Nowruzi, B., Permi, P., Zhang, Y. Z., Xhaard, H., Fewer D.P., Sivonen K. (2014) Nostosins, Trypsin Inhibitors Isolated from the Terrestrial Cyanobacterium Nostoc sp. Strain FSN. J. Nat. Prod. 77 (8), 1784-1790 DOI: 10.1021/np500106w
  25. Luhtanen A-M, Eronen-Rasimus E, Kaartokallio H, Rintala J-M, Autio R, and Roine E. 2014. Isolation and characterization of phage-host systems from the Baltic Sea ice. Extremophiles. 18: 121-130.
  26. Magarkar A, Mele N, Abdel-Rahman N, Butcher S, Torkkeli M, Serimaa R, Paananen A, Linder M, Bunker A. (2014) Hydrophobin film structure for HFBI and HFBII and mechanism for accelerated film formation. PLOS Computational Biology 10.1371/journal.pcbi.1003745
  27. Meriläinen, G., and Wierenga, R.K. (2014) Crystallization and preliminary X-ray diffraction studies of the C-terminal domain of Chlamidia trachomatis CdsD. Acta Cryst. F70, 1431-1433.
  28. Mönttinen HAM, Ravantti JJ, Stuart DI, and Poranen MM. 2014. Automated structural comparisons clarify the phylogeny of the right-hand-shape polymerases. Mol Biol Evol. 31:2741-52.
  29. Myllärniemi M, Tikkanen J, Hulmi JJ, Pasternack AH, Sutinen E, Rönty M, Leppäranta O, Kinnula V, Ma H, Ritvos O, Koli K. 2014. Upregulation of activin-B and follistatin in pulmonary fibrosis - a translational study using human biopsies and a specific inhibitor in mouse fibrosis models. BMC Pulm Med 14:170.
  30. Näreoja T, Ebner A, Gruber HJ, Taskinen B, Kienberger F, Hänninen PE, Hytönen VP, Hinterdorfer P, Härmä H. 2014. Kinetics of bioconjugate nanoparticle label binding in a sandwich-type immunoassay. Anal Bioanal Chem. Jan;406(2):493-503.
  31. Niemi MH, Rytkönen-Nissinen M, Jänis J, Virtanen T & Rouvinen J: Structural aspects of dog allergies: the crystal structure of a dog dander allergen Can f 4. Mol. Immunol. 61(2014) 7-15.
  32. Papageorgiou, A.C. & Matsson, J. (2014) Protein structure validation and analysis with X-ray crystallography. Methods Mol. Biol. 1129:397-421
  33. Peterhoff, D., Beer, B., Rajendra, C., Kumpula, E-P., Kapetaniou, E., Guldan, H., Wierenga, R.K., Sterner, R., Babinger, P. (2014) A comprehensive analysis of the geranylgeranyglyceryl phosphate synthase enzyme family identifies  novel members and reveals mechanisms of substrate specificity and quaternary structure organization.  Molecular Microbiology, 92, 885-899.
  34. Pietilä MK, Demina TA, Atanasova NS, Oksanen HM, and Bamford DH. 2014. Archaeal viruses and bacteriophages: comparisons and contrasts. Trends in Microbiol. 22:334-344.
  35. Pinon P, Pärssinen J, Vazquez P, Bachmann M, Rahikainen R, Jacquier MC, Azizi L, Määttä JA, Bastmeyer M, Hytönen VP, Wehrle-Haller B. 2014. Talin-bound NPLY motif recruits integrin-signaling adapters to regulate cell spreading and mechanosensing. J Cell Biol. Apr 28;205(2):265-81.
  36. Raasakka A, Kursula P. The myelin membrane-associated enzyme 2',3'-cyclic nucleotide 3'-phosphodiesterase: on a highway to structure and function. Neurosci Bull. 2014 Dec;30(6):956-66.
  37. Rangl M, Leitner M, Riihimäki T, Lehtonen S, Hytönen VP, Gruber HJ, Kulomaa M, Hinterdorfer P, Ebner A. 2014. Investigating the binding behaviour of two avidin-based testosterone binders using molecular recognition force spectroscopy. J Mol Recognit. Feb;27(2):92-7.
  38. Relizani K, Mouisel E, Giannesini B, Hourdé C, Patel K, Gonzales SM, Jülich K, Vignaud A, Piétri-Rouxel F, Fortin D, Garcia L, Blot S, Ritvos O, Bendahan D, Ferry A, Ventura-Clapier R, Schuelke M, Amthor H. 2014. Blockade of ActRIIB signalling triggers muscle fatigability and metabolic myopathy. Mol Ther 22:1423-1433.
  39. Repo H, Kuokkanen E, Oksanen E, Goldman A, Heikinheimo P. Is the bovine lysosomal phospholipase B-like protein an amidase? Proteins. 2014 Feb;82(2):300-11.
  40. Ruskamo S, Yadav RP, Sharma S, Lehtimäki M, Laulumaa S, Aggarwal S, Simons M,Bürck J, Ulrich AS, Juffer AH, Kursula I, Kursula P. Atomic resolution view into the structure-function relationships of the human myelin peripheral membrane protein P2. Acta Crystallogr D Biol Crystallogr. 2014 Jan;70(Pt 1):165-76.
  41. Sethi, R., Seppälä, J., Tossavainen, H., Ylilauri, M., Ruskamo, S., Pentikäinen, O. T., Pentikäinen, U., Permi, P., Ylänne, J. (2014) A Novel Structural Unit in the N-terminal Region of Filamins. J. Biol. Chem. 289: 8588–98. pmid:24469451
  42. Shunmugam, S., Jokela, J., Wahlsten, M., Battchikova, N., Rehman, A. U., Vass, I., Karonen, M., Sinkkonen, J., Permi, P., Sivonen, K., Aro, E.-M., Allahverdiyeva, Y. (2014) Secondary metabolite from Nostoc XPORK14A inhibits photosynthesis and growth of Synechocystis PCC 6803. Plant Cell Environ. 37: 1371–1381. doi:10.1111/pce.12243
  43. Sun X, Bamford DH, Poranen MM. 2014. Electrostatic interactions drive the self-assembly and the transcription activity of the Pseudomonas phage Ф6 procapsid. J Virol. 88: 7112-7116.
  44. Taberman H, Andberg M, Parkkinen T, Jänis J, Penttilä M, Hakulinen N, Koivula A & Rouvinen J: The structure and function of a decarboxylating Agrobacterium tumefaciens keto-deoxy-D-galactarate dehydratase. Biochemistry 53 (2014) 8052-8060.
  45. Taberman H, Andberg M, Parkkinen T, Richard P, Hakulinen N, Koivula A & Rouvinen J: Purification, crystallization and preliminary X-ray diffraction analysis of a novel keto-deoxy-D-galactarate (KDG) dehydratase from Agrobacterium tumefaciens. Acta Cryst. F 70 (2014) 49-52.
  46. Taskinen B, Airenne TT, Jänis J, Rahikainen R, Johnson MS, Kulomaa MS, Hytönen VP. 2014. A novel chimeric avidin with increased thermal stability using DNA shuffling. PLoS One. Mar 14;9(3):e92058.
  47. Taskinen B, Zauner D, Lehtonen SI, Koskinen M, Thomson C, Kähkönen N, Kukkurainen S, Määttä JA, Ihalainen TO, Kulomaa MS, Gruber HJ, Hytönen VP. 2014. Switchavidin: reversible biotin-avidin-biotin bridges with high affinity and specificity.Bioconjug Chem. 25:2233-43.
  48. Tossavainen H, Kukkurainen S, Määttä JA, Kähkönen N, Pihlajamaa T, Hytönen VP, Kulomaa MS, Permi P. 2014. Chimeric Avidin--NMR structure and dynamics of a 56 kDa homotetrameric thermostable protein. PLoS One. 9:e100564.
  49. Vahokoski J, Bhargav SP, Desfosses A, Andreadaki M, Kumpula EP, Martinez SM, Ignatev A, Lepper S, Frischknecht F, Sidén-Kiamos I, Sachse C, Kursula I. 2014. Structural differences explain diverse functions of Plasmodium actins. PLoS Pathog. 10:e1004091.
  50. Venkatesan, R., Sah-Teli, S.K., Awoniyi L.O., Jiang, G., Prus, P., Kastaniotis, A. J., Hiltunen, J.K., Wierenga, R.K., and Chen, Z. (2014) Insights into mitochondrial fatty acid synthesis from the structure of heterotetrameric 3-ketoacyl-ACP reductase/3R-hydroxyacyl-CoA dehydrogenase. Nat Communications 5:4805.
  51. Vestola, J., Shishido T. K., Jokela, J., Fewer, D. P., Aitio, O., Permi, P., Wahlsten, M., Wang, H., Rouhiainen, L., Sivonen, K. (2014) Hassallidins, antifungal glycolipopeptides, are widespread among cyanobacteria and are the end-product of a nonribosomal pathway. PNAS 111 (18) E1909-E1917
  52. Wiener Z, Band AM, Kallio P, Högström J, Hyvönen V, Kaijalainen S, Ritvos O, Haglund K, Kruuna O, Robine S, Louvard D, Ben-Neriah Y, Alitalo K. 2014. Oncogenic mutations in intestinal adenomas regulate Bim-mediated apoptosis induced by TGFβ. 111:E2229-36.

Year 2015 (60)

  1. Atanasova NS, Bamford DH, Oksanen HM. 2015. Haloarchaeal virus morphotypes. Biochimie. 118:333-343.
  2. Atanasova NS, Demina TA, Buivydas A, Bamford DH, and Oksanen HM. 2015. Archaeal viruses multiply: temporal screening in a solar saltern. Viruses. 7: 1902-1926.
  3. Atanasova NS, Oksanen HM, and Bamford DH. 2015. Haloviruses of archaea, bacteria, and eukaryotes. Curr. Opin. Microbiol. 25:40-48.
  4. Atanasova NS, Senčilo A, Pietilä MK, Roine E, Oksanen HM, and Bamford DH. 2015. Comparison of lipid-containing bacterial and archaeal viruses. Adv. Virus Res. 92:1-61.
  5. Batchu KC, Hokynar K, Jeltsch M, Mattonet K, Somerharju P. Substrate Efflux Propensity Is the Key Determinant of Ca2+-independent Phospholipase A-β (iPLAβ)-mediated Glycerophospholipid Hydrolysis. J Biol Chem. 2015 Apr 17;290(16):10093–103.
  6. Bhargav SP, Vahokoski J, Kallio JP, Torda AE, Kursula P, Kursula I. Two independently folding units of Plasmodium profilin suggest evolution via gene fusion. Cell Mol Life Sci. 2015 Nov;72(21):4193-203
  7. Bhattacharjee A, Reuter S, Trojnár E, Kolodziejczyk R, Seeberger H, HyvärinenS, Uzonyi B, Szilágyi Á, Prohászka Z, Goldman A, Józsi M, Jokiranta TS. The major autoantibody epitope on factor H in atypical hemolytic uremic syndrome is structurally different from its homologous site in factor H-related protein 1, supporting a novel model for induction of autoimmunity in this disease. J Biol Chem. 2015 Apr 10;290(15):9500-10.
  8. Chukhlieb M, Raasakka A, Ruskamo S, Kursula P. The N-terminal cytoplasmic domain of neuregulin 1 type III is intrinsically disordered. Amino Acids. 2015 Aug;47(8):1567-77.
  9. Dahlström KM, Salminen TA. (2015) 3D model for Cancerous Inhibitor of Protein Phosphatase 2A armadillo domain unveils highly conserved protein-protein interaction characteristics. Journal of Theoretical Biology. 386:78-88.
  10. Gil-Carton D, Jaakkola ST, Charro D, Peralta B, Castaño-Díez, Oksanen HM, Bamford DH, Abrescia NGA. 2015. Insight into the assembly of viruses with vertical single β-barrel major capsid proteins. Structure. 23:1866-1877.
  11. Guerrero, F., Ciragan, A., Iwaï, H. (2015) Tandem SUMO fusion vectors for improving soluble protein expression and purification. Protein Expression Purif. 116, 42–49.
  12. Guryanov, S., Liljeroos, L. Kasaragod, P., Kajander, T., Butcher, S.J. (2015) Crystal structure of the measles virus nucleoprotein core in complex with an N-terminal region of phosphoprotein. J. Virol. 90:2849-57. doi: 10.1128/JVI.02865-15
  13. Haka J, Niemi MH, Iljin K, Reddy VS, Takkinen K & Laukkanen M-L: Isolation of Mal d 1 and Api g 1 - specific recombinant antibodies from mouse IgG Fab fragment libraries – Mal d 1-specific antibody exhibits cross-reactivity against Bet v 1. BMC Biotechnology 15 (2015) 34.
  14. Hong C, Pietilä MK, Fu C, Schmid MF, Bamford DH, and Chiu W. 2015. Lemon-shaped halo archaeal virus His1 with uniform tail but variable capsid structure. Proc. Natl. Acad. Sci USA 112:2449-54.
  15. Juntunen K, Mäkinen S, Isoniemi S, Valtakari L, Pelzer A, Jänis J, Paloheimo M: A new subtilase-like protease deriving from Fusarium equiseti with high potential for industrial applications. Appl. Biochem. Biotechnol. 118 (2015) 62-69.
  16. Kainulainen H, Papaioannou KG, Silvennoinen M, Autio R, Saarela J, Oliveira BM, Nyqvist M, Pasternack A,’t Hoen PAC, Kujala UM, Ritvos O, Hulmi JJ. 2015. Myostatin/activin blocking combined with exercise reconditions skeletal muscle expression profile of mdx mice. Mol Cell Endocrinol 399:131-142.
  17. Karttunen J, Mäntynen S, Ihalainen TO, Bamford JKH and Oksanen HM. 2015. Non-structural proteins P17 and P33 are involved in the assembly of the internal membrane-containing virus PRD1. Virology. 482: 225-233.
  18. Koho T, Ihalainen TO, Stark M, Uusi-Kerttula H, Wieneke R, Rahikainen R, Blazevic V, Marjomäki V, Tampé R, Kulomaa MS, Hytönen VP. 2015. His-tagged norovirus-like particles: A versatile platform for cellular delivery and surface display. Eur J Pharm Biopharm. Oct;96:22-31
  19. Krause, M., Neubauer, P., Wierenga, R.K. (2015) Structure based directed evolution of a monomeric triosephosphate isomerase: towards a pentose sugar isomerase. PEDS, 28, 187-197.
  20. Kumpan, K., Nathubhai, A., Zhang, C., Wood, P.J., Lloyd, M.D., Thompson, A.S., Haikarainen, T., Lehtiö, L. & Threadgill, M.D. (2015) Structure-based design, synthesis and evaluation in vitro of arylnaphthyridinones, arylpyridopyrimidinones and their tetrahydro derivatives as inhibitors of the tankyrases. Bioorg Med Chem. 23:3013-3032.
  21. Labrou NE, Papageorgiou AC, Pavli O, Flemetakis E. 2015. Plant GSTome: Structure and functional role in xenome network and plant stress response. Curr. Opin. Biotechn. 32, 186-194 (COVER)
  22. Laitaoja M, Tossavainen H, Pihlajamaa T, Valjakka J, Viiri K, Lohi O, Permi P & Jänis J:2016. Redox-dependent disulfide bond formation in SAP30L corepressor protein: Implications for structure and function. Protein Sci. 26: 572-586.
  23. Lehtonen SI, Taskinen B, Ojala E, Kukkurainen S, Rahikainen R, Riihimäki TA, Laitinen OH, Kulomaa MS, Hytönen VP. 2015. Efficient preparation of shuffled DNA libraries through recombination (Gateway) cloning. Protein Eng Des Sel. Jan;28(1):23-8.
  24. Lim R, Muljadi R, Koulaeva E, Vosdoganes P, Chan ST, Acharya R, Gurusinghe S, Ritvos O, Pasternack A, Wallace EM. 2015. Activin A contributes to the development of hyperoxia-induced lung injury in neonatal mice.Pediatr Res. Jun;77(6):749-56.
  25. Liu Y, Wang J, Liu Y, Wang Y, Zhang Z, Oksanen HM, Bamford DH and Chen X. 2015. Identification and characterization of SNJ2, the first temperate pleolipovirus integrating into the genome of the SNJ1-lysogenic archaeal strain. Mol. Microbiol. 98: 1002-1020.
  26. Liu, L., Budnjo, A., Jokela, J., Haug, B. E., Fewer, D. P, Wahlsten, M., Rouhiainen, L., Permi, P., Fossen, T., Sivonen, K. (2015) Pseudoaeruginosins, Nonribosomal Peptides in Nodularia spumigena. ACS Chem. Biol. 10 (3), 725-733. DOI: 10.1021/cb5004306
  27. Llobet E, Martínez-Moliner V, Moranta D, Dahlström KM, Regueiro V, Tomás A, Cano V, Pérez-Gutiérrez C, Fernández-Carrasco H, Insua JL, SalminenTA, Garmendia J, Bengoechea JA (2015) Deciphering tissue-induced Klebsiella pneumoniae lipid A structure. Proceedings of the National Academy of Sciences of the United States of America. 112(46):E6369-78.
  28. Mäntynen S, Laanto E, Kohvakka A, Poranen MM, Bamford JK, Ravantti JJ. 2015. New enveloped dsRNA phage from freshwater habitat. J Gen Virol. 96:1180-9.
  29. Martikainen, M., Salorinne, K., Lahtinen, T., Malola, S., Permi, P., Häkkinen, H., Marjomaki, V. (2015) Hydrophobic Pocket Targeting Probes for Enteroviruses. Nanoscale 7, 17457– 17467, DOI: 10.1039/C5NR04139B
  30. Mattila SP, Oksanen HM, and Bamford JKH. (2015). Probing of protein interactions in the membrane-containing virus PRD1. J. Gen. Virol. 96: 453-462.
  31. Niemi MH, Rytkönen-Nissinen M, Miettinen I, Jänis J, Virtanen T, Rouvinen J (2015). Dimerization of lipocalin allergens. Sci. Rep. 5 13841.
  32. Nkizinkiko, Y., Suneel Kumar, B.V., Jeankumar, V.U., Haikarainen, T., Koivunen, J., Madhuri, C., Yogeeswari, P., Venkannagari, H., Obaji, E., Pihlajaniemi, T., Sriram, D. & Lehtiö, L. (2015) Discovery of potent and selective nonplanar tankyrase inhibiting nicotinamide mimics. Bioorg. Med. Chem. 23:4139-4149.
  33. Onwukwe, G. U., Kursula, P., Koski, M.K., Schmitz, W., and Wierenga, R.K. (2015) Human Δ3, Δ2-enoyl-CoA isomerase, type-2: a structural enzymology study on the catalytic role of its ACBP-domain and helix-10. FEBS Journal, 282, 746-768.
  34. Onwukwe, G.U., Koski, M.K., Pihko, P., Schmitz, W., and Wierenga, R.K. (2015) Structures of yeast peroxisomal Δ3,Δ2- enoyl-CoA isomerasecomplexed with acyl-CoAsubstrate analogues: the importance of hydrogen bond networks for the reactivity of the catalytic base and the oxyanion hole. Acta Crystallographica D71, 2178-2191.
  35. Paine, H.A., Nathubhai, A., Woon, E.C., Sunderland, P.T., Wood, P.J., Mahon, M.F., Lloyd, M.D., Thompson, A.S., Haikarainen, T., Narwal, M., Lehtiö, L. & Threadgill, M.D. (2015) Exploration of the nicotinamide-binding site of the tankyrases, identifying 3-arylisoquinolin-1-ones as potent and selective inhibitors in vitro. Bioorg. Med. Chem. 23:5891-5908.
  36. Papageorgiou AC, Li DC. (2015). Expression, purification and crystallization of a family 55 b-1,3-glucanase from Chaetomium thermophilum. Acta Cryst F 71, 680-683
  37. Pawlowski A, Moilanen AM, Rissanen IA, Määttä JA, Hytönen VP, Ihalainen JA, Bamford JK. (2015). The Minor Capsid Protein VP11 of Thermophilic Bacteriophage P23-77 Facilitates Virus Assembly by Using Lipid-Protein Interactions. J Virol. Aug;89(15):7593-603.
  38. Piirainen H, Hellman M, Tossavainen H, Permi P, Kursula P, Jaakola VP. (2015). Human adenosine A2A receptor binds calmodulin with high affinity in a calcium-dependent manner. Biophys J. 108(4):903-17.
  39. Piirainen H, Hellman M, Tossavainen H, Permi P, Kursula P, Jaakola VP (2015) Human adenosine A2A receptor binds calmodulin with high affinity in a calcium-dependent manner. Biophys. J. 108, 903–917
  40. Poranen MM, Bamford DH, Oksanen HM. (2015). Membrane-containing bacteriophages. In: eLS. John Wiley & Sons, Ltd: Chichester. DOI: 10.1002/9780470015902.a0000779.pub3
  41. Poudel N., Pfannstiel J., Simon O., Walter N., Papageorgiou A.C. & Jendrossek D. Pseudomonas aeruginosa Isohexenyl Glutaconyl-CoA Hydratase (AtuE) Is Upregulated in Citronellate-grown Cells and Belongs to the Crotonase Family (2015). Appl Environ Microbiol. 81, 6558-6566
  42. Quemin ERJ, Pietilä MK, Oksanen HM, Forterre P, Rijpstra WIC, Schouten S, Bamford DH, Prangishvili D, Krupovic M. 2015. Sulfolobus spindle-shaped virus 1 contains glycosylated capsid proteins, a cellular chromatin protein and host-derived lipids. J Virol. 15: 11681-91.
  43. Raasakka A, Myllykoski M, Laulumaa S, Lehtimäki M, Härtlein M, Moulin M, Kursula I, Kursula P. Determinants of ligand binding and catalytic activity in the myelin enzyme 2',3'-cyclic nucleotide 3'-phosphodiesterase. Sci Rep. 2015 Nov 13;5:16520.
  44. Ray S, Steven RT, Green FM, Höök F, Taskinen B, Hytönen VP, Shard AG. (2015). Neutralized chimeric avidin binding at a reference biosensor surface. Langmuir. Feb 17;31(6):1921-30.
  45. Rosti K, Goldman A, Kajander T. (2015). Solution structure and biophysical characterization of the multifaceted signalling effector protein growth arrest specific-1. BMC Biochem. Feb 28;16:8.
  46. Roukens MG, Peterson-Maduro J, Padberg Y, Jeltsch M, Leppänen V-M, Bos FL, et al. (2015). Functional Dissection of the CCBE1 Protein A Crucial Requirement for the Collagen Repeat Domain. Circ Res. 116(10):1660–9.
  47. Auer S, Koho T, Uusi-Kerttula H, Vesikari T, Blazevic V, Hytönen VP. (2015). Rapid and sensitive detection of norovirus antibodies in human serum with a biolayer interferometry biosensor. Sensors and Actuators B: Chemical. Jun;507-514.
  48. Sencilo A, Luhtanen A-M, Saarijärvi M, Bamford DH, Roine E. (2015). Cold-active bacteriophages from the Baltic Sea ice have diverse genomes and virus-host interactions. Environ Microbiol. 17:3628-41.
  49. Seppälä, J., Tossavainen, H., Rodic, N., Permi, P., Pentikäinen, U., Ylänne, J. (2015). Flexible structure of peptide-bound filamin A mechanosensor domain pair 20-21. PLoS One, 10(8) doi: 10.1371/journal.pone.0136969
  50. Shakeel S., Westerhuis B.M., Ora, A., Koen, G., Bakker, A.Q., Claassen, Y., Wagner, K., Beaumont, T., Wolthers, K.C., Butcher, S.J. (2015) Structural basis of human parechovirus neutralization by human monoclonal antibodies. J. Virol. 89:9571-80
  51. Shishido, T. K., Humisto, A., Jokela, J., Liu, L., Wahlsten, M., Tamrakar, A., Fewer, D. P., Permi, P., Andreote, A. P. D., Fiore, M. F., Sivonen, K. (2015) Antifungal Compounds from Cyanobacteria. Mar. Drugs 13, 2124-2140.
  52. Skopelitou, K., Muleta, A.W., Papageorgiou, A.C., Chronopoulou, E. & Labrou, N.E. (2015). Catalytic features and crystal structure of a tau class glutathione transferase from Glycine max specifically upregulated in response to soybean mosaic virus infections. Biochim. Biophys. Acta 1855, 166-177
  53. Sonkar, K. S., Pachauri, M., Kumar, A., Shukla, A., Patel, M., Jagannadham, M. V. (2015). Heme-peroxidase from medicinal plant Artocarpus lakoocha: Purification, characterization and wound healing studies. Biocatal. Agricult. Biotechn. 4, 180-190
  54. Soronen J, Haridas PAN, Sädevirta S, Mysore R, Quagliarini F, Pasternack A, Metso J, Perttilä J, Leivonen M, Jaser N, Smas C, Wabitsch M, Ehnholm C, Ritvos O, Jauhiainen M, Olkkonen VM, Yki-Järvinen H. (2015). Regulation of angiopoietin-like proteins (ANGPTLs) 3, and 8 by insulin in vivo and in cultured cells. J Clin Endocrinol Metab, 100:E1299-1307.
  55. Taberman H, Andberg M, Koivula A, Hakulinen N, Penttilä M, Rouvinen J & Parkkinen T. (2015). Structure and function of Caulobacter crescentus aldose-aldose oxidoreductase. Biochem. J. 472:297-307.
  56. Tamminen JA, Yin M, Rönty M, Sutinen E, Pasternack A, Ritvos O, Myllärniemi M, Koli K. (2015). Overexpression of activin-A and -B in malignant mesothelioma - attenuated Smad3 signaling responses and ERK activation promote cell migration and invasive growth. Exp Cell Res. Mar 1;332(1):102-15.
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Year 2016 (48)

  1. Andberg M, Aro-Kärkkäinen N, Carlson P, Oja M, Bozonnet S, Toivari M, Hakulinen N, O'Donohue M, Penttilä M & Koivula A. (2016). Characterization and mutagenesis of two novel iron-sulphur cluster pentonate dehydratases. Appl. Microbiol. Biotechnol.100:7549-7563.
  2. Atanasova NS, Bamford DH, Oksanen HM. (2016). Virus-host interplay in high salt environments. Environmental microbiology reports. Environ Microbiol Rep. 8(4):431-44.
  3. Axarli, I., Muleta, A.W., Vlachakis, D., Kossida, S., Kotzia, G., Maltezos, A., Dhavala, P., Papageorgiou, A.C & Labrou, N.E. (2016). Directed evolution of tau class glutathione transferases reveals a site that regulates catalytic efficiency and masks cooperativity. Biochem. J. 473, 559-570
  4. Batchu KC, Hänninen S, Jha SK, Jeltsch M, Somerharju P. (2016). Factors regulating the substrate specificity of cytosolic phospholipase A2-alpha in vitro. BBA-Mol Cell Biol L. 1861(11):1597–604.
  5. Blazevits, O., Mideksa, Y.G., Solman, M., Ligabue, A., Ariotti, N., Nakhaeizadeh, H., Eyad Fansa, E., Papageorgiou, A.C., Wittinghofer, A., Ahmadian, R.M., Parton, R.G. & Abankwa, D. (2016). Galectin-1 dimers can scaffold Raf-effectors to increase H-ras nanoclustering. Sci. Reports 6:24165
  6. Bosma M, Gerling M, Pasto J, Georgiadi A, Graham E, Shilkova O, Iwata Y, Almer S, Söderman J, Toftgård R, Wermeling F, Boström EA, Boström PA. (2016). FNDC4 acts as an anti-inflammatory factor on macrophages and improves colitis in mice. Nat Commun. 7:11314.
  7. Ciragan, A., Aranko, A.S., Tascon, I. & Iwaï, H. (2016) Salt-inducible protein splicing in cis and trans by inteins from extremely halophilic archaea as a novel protein-engineering tool. J. Mol. Bio 428:4573-4588.
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  56. Snaidero N, Velte C, Myllykoski M, Raasakka A, Ignatev A, Werner HB, Erwig MS, Möbius W, Kursula P, Nave KA, Simons M. 2017. Antagonistic functions of MBP and CNP establish cytosolic channels in CNS myelin. Cell Rep. 18:314-323.
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Year 2018 (38)

  1. Adriaenssens EM, Wittmann J, Kuhn JH, Turner D, Sullivan MB, Dutilh BE, Jang HB, van Zyl LJ, Klumpp J, Lobocka M, Moreno Switt AI, Rumnieks J, Edwards RA, Uchiyama J, Alfenas-Zerbini P, Petty NK, Kropinski AM, Barylski J, Gillis A, Clokie MRC, Prangishvili D, Lavigne R, Aziz RK, Duffy S, Krupovic M, Poranen MM, Knezevic P, Enault F, Tong Y, Oksanen HM, Rodney Brister J. 2018. Taxonomy of prokaryotic viruses: 2017 update from the ICTV Bacterial and Archaeal Viruses Subcommittee. Arch Virol. 163:1125-1129.
  2. Antila CJM, Rraklli V, Blomster HA, Dahlström KM, Salminen TA, Holmberg J, Sistonen L, Cecilia Sahlgren C. 2018. Sumoylation of Notch1 represses its target gene expression during cell stress. Cell Death Differ. 25:600-615.
  3. Atanasova NS, Demina TA, Krishnam Rajan Shanthi SV, Oksanen HM, and Bamford DH. 2018. Extremely halophilic pleomorphic archaeal virus HRPV9 extends the diversity of pleolipoviruses with integrases. Res Microbiol. S0923-2508(18)30060-3. [Epub ahead of print]
  4. Atanasova NS, Heiniö CHE, Demina T, Bamford DH, Oksanen HM. 2018. The unexplored diversity of pleolipoviruses: the surprising case of two viruses with identical major structural modules. Genes 9:131
  5. Azinas S, Bano F, Torca I, Bamford DH, Schwartz GA, Esnaola J, Oksanen HM, Richter RP, Abrescia NG. 2018. Membrane-containing virus particles exhibit the mechanics of a composite material for genome protection. Nanoscale 10:7769-7779.

  6. Carvalho LL, Elovaara H, de Ruyck J, Vergoten G, Jalkanen S, Guédez G, Salminen TA.2018. Mapping the interaction site and effect of the Siglec-9 inflammatory biomarker on human primary amine oxidase. Sci Rep. 8:2086.
  7. Duyvesteyn HME, Ginn HM, Pietilä MK, Wagner A, Hattne J, Grimes JM, Hirvonen E, Evans G, Parsy M-L, Sauter NK, Brewster AS, Huiskonen JT, Stuart DI, Sutton G, Dennis H. Bamford DH. 2018. Towards in cellulo virus crystallography. Sci. Rep. 8:3771.
  8. Domanska A, Flatt JW, Jukonen JJJ, Geraets JA, Butcher SJ. 2018. 2.8 Å resolution cryo-EM structure of human parechovirus 3 in complex with Fab from a neutralizing antibody. J Virol. [Epub ahead of print]

  9. Eskelin K, Poranen MM. 2018. Controlled disassembly and purification of functional viral subassemblies using asymmetrical flow field-flow fractionation (AF4). Viruses 10:579
  10. Edqvist J, Blomqvist K, Nieuwland J, Salminen TA. 2018. Plant lipid transfer proteins: are we finally closing in on these enigmatic proteins. J Lipid Res. 59:1374-1382
  11. Gludovacz E, Maresch D, Lopes de Carvalho L, Puxbaum V, Baier LJ, Sützl L, Guédez G, Grünwald-Gruber C, Ulm B, Pils S, Ristl R, Altmann F, Jilma B, Salminen TA, Borth N, Boehm T. 2018. Oligomannosidic glycans at Asn-110 are essential for secretion of human diamine oxidase. J Biol Chem. 293:1070-1087.
  12. Haataja S, Verma P, Fu O, Papageorgiou AC, Pöysti S, Pieters RJ, Nilsson UJ, Finne J. 2018. Rationally designed chemically modified glycodendrimer inhibits Streptococcus suis adhesin SadP at picomolar concentrations. Chemistry 24:1905-1912.
  13. Haikarainen T, Maksimainen M. Obaji E, Lehtiö L. 2018. Development of a screening assay for mono-ADP-ribosyl hydrolyzing macrodomains using AlphaScreen technology. SLAS Disc. 23:255-263
  14. Hepojoki J, Hepojoki S, Smura T, Szirovicza L, Dervas E, Prähauser B, Nufer L, Schraner EM, Vapalahti O, Kipar A, Hetzel U. 2018. Characterization of Haartman Institute snake virus-1 (HISV-1) and HISV-like viruses-The representatives of genus hartmanivirus, family Arenaviridae. PLoS Pathog. 14:e1007415.

  15. Karki S, Paudel P, Sele C, Skhumatov AV, Kajander T. 2018. The structure of SALM5 suggests a dimeric assembly for the presynaptic RPTP ligand recognition. Protein Eng Des Sel. 31:147-157.

  16. King AWT, Mäkelä V, Kedzior SA, Laaksonen T, Partl GJ, Heikkinen S, Koskela H, Heikkinen HA, Holding AJ, Cranston ED, Kilpeläinen I. 2018. Liquid-state NMR analysis of nanocelluloses. Biomacromolecules. 19:2708-2720.
  17. Koskela MM, Dahlström KM, Goñi G, Lehtimäki N, Nurmi M, Velazquez-Campoy A, Hanke G, Bölter B, Salminen TA, Medina M, Mulo P. 2018. Arabidopsis FNRL protein is an NADPH-dependent chloroplast oxidoreductase resembling bacterial ferredoxin-NADP+ reductases. Physiol Plant. 162(2):177-190.
  18. Laitinen OH, Svedin E, Kapell S, Hankaniemi MM, Larsson PG, Domsgen E, Stone VM, Määttä JAE, Hyöty H, Hytönen VP, Flodström-Tullberg M. 2018. New coxsackievirus 2Aproand 3Cpro protease antibodies for virus detection and discovery of pathogenic mechanisms. J Virol Methods. 255:29-37.
  19. Lampi M, Oksanen HM, Meier F, Moldenhauer E, Poranen MM, Bamford DH, and Eskelin K. 2018. Asymmetrical flow field-flow fractionation in purification of an enveloped bacteriophage ɸ6. J Chrom B. 1095: 251-257.
  20. Leigh B, Breitbart M, Oksanen HM, Bamford DH, Dishaw L. 2018. Genome sequence of PM2-like phage Cr39582 induced from Pseudoalteromonas sp. isolated from the gut of Ciona robusta. Genome Announc. 6:e00368-18.
  21. Levanova A, Poranen MM. 2018. Application of steric exclusion chromatography on monoliths for separation and purification of RNA molecules. J Chrom A. In Press.
  22. Li DC, Papageorgiou AC. 2018. Cellulases from thermophilic fungus: Structural and functional insights. In 'Fungi in extreme environments: Ecological and biotechnological significance', Springer Publishers, ed. S. Tiquia-Arashiro
  23. Luhtanen AM, Eronen-Rasimus E, Oksanen HM, Tison J-L, Delille B, Dieckmann G, Rintala J-M, Bamford DH. 2018. The first known virus isolates from Antarctic sea ice have complex infection patterns. FEMS Microbiol Ecol. 94:fiy028.
  24. Mikula KM, Krumwiede L, Plückthun A, Iwaï H. 2018. Segmental isotopic labeling by asparaginyl endopeptidase-mediated protein ligation.  J Biomol NMR. 71:225-235.
  25. Niehl A, Soininen M, , Heinlein M. 2018. Synthetic biology approach for plant protection using dsRNA. Plant Biotechnol J. In Press
  26. Nkizinkiko Y, Desantis J, Koivunen J, Haikarainen T, Murthy S, Sancineto L, Massari S, Ianni F, Obaji E, Loza MI, Pihlajaniemi T, Brea J, Tabarrini O, Lehtiö L. 2018. 2-Phenylquinazolinones as dual-activity tankyrase-kinase inhibitors. Sci. Rep. 8:1680
  27. Norppa AJ, Kauppala TM, Heikkinen HA, Verma B, Iwai H, Frilander MJ. 2018. Mutations in the U11/U12-65K protein associated with isolated growth hormone deficiency lead to structural destabilization and impaired binding of U12 snRNA. RNA. 24:396-409
  28. Papageorgiou, AC. 2018. X-ray crystallography in structure-function characterization of therapeutic enzymes. Adv. Exper. Med. Biol. In press
  29. Penttinen L, Rutanen C, Saloheimo M, Kruus K, Rouvinen J, Hakulinen N. 2018. A new crystal form of Aspergillus oryzae catechol oxidase and evaluation of copper site structures in coupled binuclear copper enzymes. PLoS One. 13:e0196691.
  30. Pietilä MK, van Hemert MJ, Ahola T. 2018. Purification of highly active alphavirus replication complexes demonstrates altered fractionation of multiple cellular membranes. J Virol. 92:e01852-17.
  31. Rahman MM, Andberg M, Koivula A, Rouvinen J, Hakulinen N. 2018. The crystal structure of D-xylonate dehydratase reveals functional features of enzymes from the Ilv/ED dehydratase family. Sci Rep. 8:865
  32. Saarinen NVV, Laiho JE, Richardson SJ, Zeissler M, Stone VM, Marjomäki V, Kantoluoto T, Horwitz MS, Sioofy-Khojine A, Honkimaa A, Hankaniemi MM, Flodström-Tullberg M, Hyöty H, Hytönen VP, Laitinen OH. 2018. A novel rat CVB1-VP1 monoclonal antibody 3A6 detects a broad range of enteroviruses. Sci Rep. 8:33.
  33. Salminen TA, Eklund DM, Joly V, Blomqvist K, Matton DP, Edqvist J. 2018. Deciphering the evolution and development of the cuticle by studying lipid transfer proteins in mosses and liverworts. Plants 7:6.
  34. Shakeel, S., Evans, J.D., Hazelbaker, M., Kao, C. C., Vaughan, R.C., Butcher, S.J. 2018. Intrinsically-disordered N-termini in human parechovirus 1 capsid proteins bind encapsidated RNA. Sci Rep. 8:5820.
  35. Shiraishi Y, Natsume M, Kofuku Y, Imai S, Nakata K, Mizukoshi T, Ueda T, Iwaï H, Shimada I. 2018. Phosphorylation-induced conformation of ß2-adrenoceptor related to arrestin recruitment revealed by NMR. Nat Commun. 9:194.
  36. Stone VM, Hankaniemi MM, Svedin E, Sioofy-Khojine A, Oikarinen S, Hyöty H, Laitinen OH, Hytönen VP, Flodström-Tullberg M. 2018. A coxsackievirus B vaccine protects against virus-induced diabetes in an experimental mouse model of type 1 diabetes. Diabetologia. 61:476-481.
  37. Yang D, Viitasuo M, Pooch F, Tenhua H, Hietala S. 2018. Poly(N-acryloylglycinamide) microgels as nanocatalyst platform. Polym. Chem. 9: 517-524.
  38. Zhang Y, Jumppanen M, Maksimainen MM, Auno S, Awol Z, Ghemtio L, Venkannagari H, Lehtiö L, Yli-Kauhaluoma J, Xhaard H, Boije Af Gennäs G. 2018. Adenosine analogs bearing phosphate isosteres as human MDO1 ligands. Bioorg Med Chem. 26:1588-1597.