MQAPsingle: A quasi single-model approach for estimation of the quality of individual protein structure models Pawlowski M, Kozlowski L, Kloczkowski A Proteins. 2016 Molecularly Imprinted Polymer (MIP) Film with Improved Surface Area Developed by Using Metal-Organic Framework (MOF) for Sensitive Lipocalin (NGAL) Determination. Iskierko Z, Sharma PS, Prochowicz D, Fronc K, D'Souza F, Toczydłowska D, Stefaniak F, Noworyta K ACS Appl Mater Interfaces.. 2016 Identification of protein structural elements responsible for the diversity of sequence preferences among Mini-III RNases. Glow D, Kurkowska M, Czarnecka J, Szczepaniak K, Pianka D, Kappert V, Bujnicki JM, Skowronek KJ Sci Rep.. 2016 Structural and functional insights into tRNA binding and adenosine N1-methylation by an archaeal Trm10 homologue Van Laer B, Roovers M, Wauters L, Kasprzak JM, Dyzma M, Deyaert E, Singh R, Feller A, Bujnicki JM, Droogmans L, Versées W Nucleic Acids Res. 2016 Computational modeling of RNA 3D structures and interactions Dawson WK, Bujnicki JM Curr Opin Struct Biol. 2016 SimRNA: a coarse-grained method for RNA folding simulations and 3D structure prediction Boniecki MJ, Lach G, Dawson WK, Tomala K, Lukasz P, Soltysinski T, Rother KM, Bujnicki JM Nucleic Acids Res. 2016 The architecture of the Schizosaccharomyces pombe CCR4-NOT complex Ukleja M, Cuellar J, Siwaszek A, Kasprzak JM, Czarnocki-Cieciura M, Bujnicki JM, Dziembowski A, Valpuesta J Nature Commun. 2016 Loss of conserved non-coding RNAs in genomes of bacterial endosymbionts Matelska D, Kurkowska M, Purta E, Bujnicki JM, Dunin-Horkawicz S Genome Biol Evol. 2016 Genome-wide survey of codons under diversifying selection in a highly recombining bacterial species, Helicobacter pylori Yahara K, Furuta Y, Morimoto S, Kikutake C, Komukai S, Matelska D, Dunin-Horkawicz S, Bujnicki JM, Uchiyama I, Kobayashi I DNA Res. 2016 SimRNAweb: a web server for RNA 3D structure modeling with optional restraints Magnus MM, Boniecki MJ, Dawson WK, Bujnicki JM Nucleic Acids Res.. 2016 Phylogenomics and sequence-structure-function relationships in the GmrSD family of Type IV restriction enzymes. Machnicka AM, Kaminska KH, Dunin-Horkawicz S, Bujnicki JM. BMC Bioinformatics. 2015 RNAcentral: a comprehensive database of non-coding RNA sequences The RNAcentral Consortium (Petrov AI et al within Bujnicki JM) Nucleic Acids Res. 2015 Magnesium binding architectures in RNA crystal structures: validation binding preferences, classification, and motif detection Zheng H, Shabalin I, Handing K, Bujnicki JM, Minor M Nucleic Acids Res. 2015 NPDock – a web server for protein-nucleic acid docking Tuszynska I, Magnus M, Jonak K, Dawson W, Bujnicki JM Nucleic Acids Res. 2015 Biochemical Characterization and Validation of a Catalytic Site of a Highly Thermostable Ts2631 Endolysin from the Thermus scotoductus Phage vB_Tsc2631 Plotka M, Kaczorowska AK, Morzywolek A, Makowska J, Kozlowski LP, Thorisdottir A, Skírnisdottir S, Hjörleifsdottir S, Fridjonsson OH, Hreggvidsson GO, Kristjansson JK, Dabrowski S, Bujnicki JM, Kaczorowski T PLoS One. 2015 Computational methods for prediction of RNA interactions with metal ions and small organic ligands Philips A, Lach G, Bujnicki JM Methods Enzymol. 2015 RNA-Puzzles Round II: assessment of RNA structure prediction programs applied to three large RNA structures Miao Z, Adamiak RW, Blanchet MF, Boniecki M, Bujnicki JM, Chen SJ, Cheng C, Chojnowski G, Chou FC, Cordero P, Cruz JA, Ferré-D'amaré AR, Das R, Ding F, Dokholyan NV, Dunin-Horkawicz S, Kladwang W, Krokhotin A, Lach G, Magnus M, Major F, Mann TH, Masquida B, Matelska D, Meyer M, Peselis A, Popenda M, Purzycka KJ, Serganov A, Stasiewicz J, Szachniuk M, Tandon A, Tian S, Wang J, Xiao Y, Xu X, Zhang J, Zhao P, Zok T, Westhof E RNA. 2015 A composite double-/single-stranded RNA-binding region in protein Prp3 supports tri-snRNP stability and splicing Liu S, Mozaffari-Jovin S, Wollenhaupt J, Santos KF, Theuser M, Dunin-Horkawicz S, Fabrizio P, Bujnicki JM, Lührmann R, Wahl MC eLife. 2015 Sequence-specific cleavage of dsRNA by Mini-III RNase Glow D, Pianka D, Sulej A, Kozlowski L, Czarnecka J, Chojnowski G, Skowronek KJ, Bujnicki JM Nucleic Acids Res. 2015 Characterization of the termini of the West Nile virus genome and their interactions with the small isoform of the 2' 5'-Oligoadenylate Synthetase family Deo S, Patel TR, Chojnowski G, Koul A, Dzananovic E, McEleney K, Bujnicki JM, McKenna SA J Struct Biol. 2015 Structure and intrinsic disorder of the proteins of the Trypanosoma brucei editosome Czerwoniec A, Kasprzak JM, Bytner P, Dobrychlop M, Bujnicki JM FEBS Lett. 2015 Brickworx builds recurrent RNA and DNA structural motifs into medium and low-resolution electron density maps Chojnowski G, Walen T, Piatkowski P, Potrzebowski W, Bujnicki JM Acta Crystallogr D Biol Crystallogr. 2015 An atlas of RNA base pairs involving modified nucleobases with optimal geometries and accurate energies Chawla M, Oliva R, Bujnicki JM, Cavallo L Nucleic Acids Res. 2015 A magnetic origin of cuprate superconductivity? A MaxEnt-mu SR view Boekema C, Owens F, Love A, Li Z, Sakkaris P, Dawson WK Int J Mod Phys B. 2015 The signature of the five-stranded vRRM fold defined by functional, structural and computational analysis of the hnRNP L protein Blatter M, Dunin-Horkawicz S, Grishina I, Maris C, Thore S, Maier T, Bindereif A, Bujnicki JM, Allain FHT J Mol Biol. 2015 Functional and evolutionary analyses of Helicobacter pylori HP0231 (DsbK) protein with strong oxidative and chaperone activity characterized by a highly diverged dimerization domain Bocian-Ostrzycka KM, Łasica AM, Dunin-Horkawicz S, Grzeszczuk MJ, Drabik K, Dobosz AM, Godlewska R, Nowak E, Collet J-F, Jagusztyn-Krynicka EK Frontiers in Microbiology. 2015 Helicobacter pylori HP0377, a member of the Dsb family, is an untypical multifunctional CcmG that cooperates with dimeric thioldisulfide oxidase HP0231 Roszczenko P, Grzeszczuk M, Kobierecka P, Wywial E, Urbanowicz P, Wincek P, Nowak E, Jagusztyn-Krynicka EK BMC Microbiol.. 2015 Distribution and frequencies of post-transcriptional modifications in tRNAs. Machnicka M, Olchowik A, Grosjean H, Bujnicki JM. RNA Biol.. 2014 RNA methyltransferases involved in 5' cap biosynthesis. Byszewska M, Smietanski M, Purta E, Bujnicki JM. RNA Biol.. 2014 Designability landscape reveals sequence features that define axial helix rotation in four-helical homo-oligomeric antiparallel coiled-coil structures Szczepaniak K, Lach G, Bujnicki JM, Dunin-Horkawicz S J Struct Biol.. 2014