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1

RRMdb—an evolutionary-oriented database of RNA recognition motif sequences

Nowacka, Martyna, Boccaletto, Pietro, Jankowska, Elzbieta, Jarzynka, Tomasz, Bujnicki, Janusz M, Dunin-Horkawicz, Stanislaw

Journal:

Year:

2019

Language:

english

File:

PDF, 1.91 MB

english, 2019

2

Predicting Atomic Details of the Unfolding Pathway for YibK, a Knotted Protein from the SPOUT Superfamily

Tuszynska, Irina, Bujnicki, Janusz M.

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

2010

Language:

english

File:

PDF, 1.83 MB

english, 2010

3

Modeling and experimental analyses reveal a two-domain structure and amino acids important for the activity of aminoglycoside resistance methyltransferase Sgm

Gordana Maravić Vlahoviček, Sonja Čubrilo, Karolina L. Tkaczuk, Janusz M. Bujnicki

Journal:

Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics

Year:

2008

Language:

english

File:

PDF, 1.78 MB

english, 2008

4

Anti-HIV-1 activity of 3-deaza-adenosine analogs : Inhibition of S-adenosylhomocysteine hydrolase and nucleotide congeners

Richard K. Gordon, Krzysztof Ginalski, Witold R. Rudnicki, Leszek Rychlewski, Marvin C. Pankaskie, Janusz M. Bujnicki, Peter K. Chiang

Journal:

Year:

2003

Language:

english

File:

PDF, 459 KB

english, 2003

5

A “FRankenstein's monster” approach to comparative modeling: Merging the finest fragments of Fold-Recognition models and iterative model refinement aided by 3D structure evaluation

Jan Kosinski, Iwona A. Cymerman, Marcin Feder, Michal A. Kurowski, Joanna M. Sasin, Janusz M. Bujnicki

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2003

Language:

english

File:

PDF, 897 KB

english, 2003

6

Identification of a new subfamily of HNH nucleases and experimental characterization of a representative member, HphI restriction endonuclease

Iwona A. Cymerman, Agnieszka Obarska, Krzysztof J. Skowronek, Arvydas Lubys, Janusz M. Bujnicki

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2006

Language:

english

File:

PDF, 464 KB

english, 2006

7

LiveBench-1: Continuous benchmarking of protein structure prediction servers

Janusz M. Bujnicki, Arne Elofsson, Daniel Fischer, Leszek Rychlewski

Journal:

Protein Science

Year:

2001

Language:

english

File:

PDF, 694 KB

english, 2001

8

Homology Modeling of the CG-specific DNA Methyltransferase SssI and its Complexes with DNA and AdoHcy

Koudan, E. V., Bujnicki, J. M., Gromova, E. S.

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

2004

Language:

english

File:

PDF, 1.15 MB

english, 2004

9

Computational modeling of RNA 3D structures, with the aid of experimental restraints

Magnus, Marcin, Matelska, Dorota, Łach, Grzegorz, Chojnowski, Grzegorz, Boniecki, Michal J, Purta, Elzbieta, Dawson, Wayne, Dunin-Horkawicz, Stanislaw, Bujnicki, Janusz M

Journal:

Year:

2014

Language:

english

File:

PDF, 1.59 MB

english, 2014

10

Erratum to: Cloning and analysis of a bifunctional methyltransferase/restriction endonuclease TspGWI, the prototype of aThermussp. enzyme family

Agnieszka Zylicz-Stachula,Janusz M Bujnicki,Piotr M Skowron

Journal:

BMC Molecular Biology

Year:

2014

Language:

english

File:

PDF, 4.63 MB

english, 2014

11

Bioinformatics Tools and Benchmarks for Computational Docking and 3D Structure Prediction of RNA-Protein Complexes

Nithin, Chandran, Ghosh, Pritha, Bujnicki, Janusz

Journal:

Year:

2018

Language:

english

File:

PDF, 2.33 MB

english, 2018

12

Structural characterization of two tandemly arranged DNA methyltransferase genes from Neisseria gonorrhoeae MS11: N4-cytosine specific M.NgoMXV and nonfunctional 5-cytosine-type M.NgoMorf2P

Monika Radlinska, Janusz M. Bujnicki, Andrzej Piekarowicz

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1999

Language:

english

File:

PDF, 653 KB

english, 1999

13

Site of Protonation of Carboxylic and Non-Carboxylic Amides in the Gas Phase and in Water

Alessandro Bagno, Bogdan Bujnicki, Sylvie Bertrand, Clara Comuzzi, Fabrizio Dorigo, Pierre Janvier, Gianfranco Scorrano

Journal:

Chemistry - A European Journal

Year:

1999

Language:

english

File:

PDF, 216 KB

english, 1999

14

Vibrational Circular Dichroism and Absolute Configuration of Chiral Sulfoxides: tert-Butyl Methyl Sulfoxide

Ahmed Aamouche, Frank J. Devlin, Philip J. Stephens, Józef Drabowicz, Bogdan Bujnicki, Marian Mikołajczyk

Journal:

Chemistry - A European Journal

Year:

2000

Language:

english

File:

PDF, 156 KB

english, 2000

15

Diversity-Oriented Production of Metabolites Derived from Chorismate and Their Use in Organic Synthesis

Johannes Bongaerts, Simon Esser, Volker Lorbach, Prof. Lóay Al-Momani, Michael A. Müller, Dirk Franke, Christoph Grondal, Anja Kurutsch, Robert Bujnicki, Prof. Ralf Takors, Leon Raeven, Marcel Wubbolt

Journal:

Angewandte Chemie

Year:

2011

Language:

english

File:

PDF, 392 KB

english, 2011

16

Diversity-Oriented Production of Metabolites Derived from Chorismate and Their Use in Organic Synthesis

Johannes Bongaerts, Simon Esser, Volker Lorbach, Prof. Lóay Al-Momani, Michael A. Müller, Dirk Franke, Christoph Grondal, Anja Kurutsch, Robert Bujnicki, Prof. Ralf Takors, Leon Raeven, Marcel Wubbolt

Journal:

Angewandte Chemie International Edition

Year:

2011

Language:

english

File:

PDF, 362 KB

english, 2011

17

Process control for enhanced L-phenylalanine production using different recombinant Escherichia coli strains

M. Gerigk, R. Bujnicki, E. Ganpo-Nkwenkwa, J. Bongaerts, G. Sprenger, R. Takors

Journal:

Biotechnology and Bioengineering

Year:

2002

Language:

english

File:

PDF, 269 KB

english, 2002

18

Protein-Structure Prediction by Recombination of Fragments

Janusz M. Bujnicki

Journal:

Year:

2006

Language:

english

File:

PDF, 349 KB

english, 2006

19

Protein Structure Prediction: Concepts and Applications. Anna Tramontano.

Janusz Bujnicki

Journal:

Year:

2006

Language:

english

File:

PDF, 61 KB

english, 2006

20

ChemInform Abstract: Diastereomeric Sulfinates Derived from (L)-N-Methylephedrine: Synthesis, Applications, and Rearrangements.

Jozef Drabowicz, Bogdan Bujnicki, Paolo Biscarini, Marian Mikolajczyk

Journal:

Year:

2000

File:

PDF, 32 KB

2000

21

Fed-batch-Prozessentwicklung zur Produktion und Gewinnung von Cyclitolen mit rekombinanten Escherichia coli

R. Bujnicki, Ch. Wandrey, R. Takors

Journal:

Chemie Ingenieur Technik

Year:

2004

Language:

german

File:

PDF, 45 KB

german, 2004

22

Virtual Screening and Experimental Verification to Identify Potential Inhibitors of the ErmC Methyltransferase Responsible for Bacterial Resistance against Macrolide Antibiotics

Marcin Feder, Elzbieta Purta, Lukasz Koscinski, Sonja Čubrilo, Gordana Maravic Vlahovicek, Janusz M. Bujnicki

Journal:

Year:

2008

Language:

english

File:

PDF, 361 KB

english, 2008

23

Chiral sulfur-containing structures: Selected synthetic and structural aspects

Józef Drabowicz, Adrian Zając, Dorota Krasowska, Bogdan Bujnicki, Bogdan Dudziński, Magdalena Janicka, Marian Mikołajczyk, Marek Chmielewski, Zbigniew Czarnocki, Jacek Gawroński, Prasad L. Polavarapu,

Journal:

Heteroatom Chemistry

Year:

2007

Language:

english

File:

PDF, 451 KB

english, 2007

24

Stereoselective synthesis of and atropisomerism in 4-pyridyl-3-(1-pyridinio)-3,4-trans-1,2,3,4-tetrahydropyridines and their transformation products

Anatolij M. Shestopalov, Olga P. Bogomolova, Ludmila A. Rodinovskaja, Victor P. Litvinov, Bogdan Bujnicki, Marian Mikol̀ajczyk, Vladimir N. Nesterov, Yurij T. Struchkov

Journal:

Heteroatom Chemistry

Year:

1993

Language:

english

File:

PDF, 893 KB

english, 1993

25

Identification of Lynch syndrome mutations in the MLH1–PMS2 interface that disturb dimerization and mismatch repair

Jan Kosinski, Inga Hinrichsen, Janusz M. Bujnicki, Peter Friedhoff, Guido Plotz

Journal:

Year:

2010

Language:

english

File:

PDF, 423 KB

english, 2010

26

An efficient procedure for the synthesis of 18O-labelled methanesulfinyl chloride

Józef Drabowicz, Bogdan Bujnicki, Marian Mikolajczyk

Journal:

Journal of Labelled Compounds and Radiopharmaceuticals

Year:

2003

Language:

english

File:

PDF, 80 KB

english, 2003

27

“4D Biology for health and disease” workshop report

Jan-Pieter Abrahams, Rolf Apweiler, Rudi Balling, Michela G. Bertero, Janusz M. Bujnicki, Naomi E. Chayen, Patrick Chène, Gary L. Corthals, Tomasz Dyląg, Friedrich Förster, Albert J.R. Heck, Peter J.F

Journal:

New Biotechnology

Year:

2011

Language:

english

File:

PDF, 94 KB

english, 2011

28

Casein kinases phosphorylate multiple residues spanning the entire hnRNP K length

Michał Mikula, Jakub Karczmarski, Artur Dzwonek, Tymon Rubel, Ewa Hennig, Michał Dadlez, Janusz M. Bujnicki, Karol Bomsztyk, Jerzy Ostrowski

Journal:

Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics

Year:

2006

Language:

english

File:

PDF, 516 KB

english, 2006

29

Structural integrity of the Beta Beta Alpha-Metal finger motif is required for DNA binding and stable protein–DNA complex formation in R.KpnI

Kommireddy Vasu, Matheshwaran Saravanan, Janusz M. Bujnicki, Valakunja Nagaraja

Journal:

Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics

Year:

2008

Language:

english

File:

PDF, 652 KB

english, 2008

30

The first approach to optically active 2,2′-bipyridine alkyl sulfoxides

Justyna Ławecka, Bogdan Bujnicki, Józef Drabowicz, Andrzej Rykowski

Journal:

Tetrahedron Letters

Year:

2008

Language:

english

File:

PDF, 123 KB

english, 2008

31

Theoretical predictions of the impact of the trisubstituted pyrophosphate internucleotide bond on B DNA fragments

Bogusław Śmiech, Rajmund Kaźmierkiewicz, Janusz Bujnicki, Bernard Lammek

Journal:

Journal of Molecular Structure: THEOCHEM

Year:

2005

Language:

english

File:

PDF, 449 KB

english, 2005

32

Nucleophilic substitution at sulfinyl sulfur. Factors affecting the inversion to retention ratio in acid-catalyzed alcoholysis of chiral n,n-di isopropyl p-toluenesulfinamide

M. Mikotajczyk, I. Drabowicz, B. Bujnicki

Journal:

Tetrahedron Letters

Year:

1985

Language:

english

File:

PDF, 269 KB

english, 1985

33

Diastereomeric sulfinates derived from (l)-N-methylephedrine: synthesis, applications and rearrangements

Józef Drabowicz, Bogdan Bujnicki, Paolo Biscarini, Marian Mikołajczyk *

Journal:

Tetrahedron: Asymmetry

Year:

1999

Language:

english

File:

PDF, 227 KB

english, 1999

34

Atomic model of the 5-methylcytosine-specific restriction enzyme McrA reveals an atypical zinc finger and structural similarity to ββαMe endonucleases

Janusz M. Bujnicki, Monika Radlinska, Leszek Rychlewski

Journal:

Molecular Microbiology

Year:

2000

Language:

english

File:

PDF, 124 KB

english, 2000

35

DARS-RNP and QUASI-RNP: New statistical potentials for protein-RNA docking

Irina Tuszynska, Janusz M Bujnicki

Journal:

BMC Bioinformatics

Year:

2011

Language:

english

File:

PDF, 1.09 MB

english, 2011

36

Cloning and analysis of a bifunctional methyltransferase/restriction endonuclease TspGWI, the prototype of aThermussp. enzyme family

Agnieszka Zylicz-Stachula, Janusz M Bujnicki, Piotr M Skowron

Journal:

BMC Molecular Biology

Year:

2009

Language:

english

File:

PDF, 6.46 MB

english, 2009

37

TheyfhQgene ofEscherichia coliencodes a tRNA:Cm32/Um32 methyltransferase

Elzbieta Purta, Françoise van Vliet, Karolina L Tkaczuk, Stanislaw Dunin-Horkawicz, Hirotada Mori, Louis Droogmans, Janusz M Bujnicki

Journal:

BMC Molecular Biology

Year:

2006

Language:

english

File:

PDF, 1.98 MB

english, 2006

38

A homology model of restriction endonuclease SfiI in complex with DNA

Agnieszka A Chmiel, Janusz M Bujnicki, Krzysztof J Skowronek

Journal:

BMC Structural Biology

Year:

2005

Language:

english

File:

PDF, 3.51 MB

english, 2005

39

Type II restriction endonuclease R.Hpy188I belongs to the GIY-YIG nuclease superfamily, but exhibits an unusual active site

Katarzyna H Kaminska, Mikihiko Kawai, Michal Boniecki, Ichizo Kobayashi, Janusz M Bujnicki

Journal:

BMC Structural Biology

Year:

2008

Language:

english

File:

PDF, 4.78 MB

english, 2008

40

Conformation of a plasmid replication initiator protein affects its proteolysis by ClpXP system

Marcin Pierechod, Agnieszka Nowak, Anna Saari, Elzbieta Purta, Janusz M. Bujnicki, Igor Konieczny

Journal:

Protein Science

Year:

2009

Language:

english

File:

PDF, 517 KB

english, 2009

41

LiveBench-2: Large-scale automated evaluation of protein structure prediction servers

Janusz M. Bujnicki, Arne Elofsson, Daniel Fischer, Leszek Rychlewski

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2001

Language:

english

File:

PDF, 79 KB

english, 2001

42

Fold recognition, homology modeling, docking simulations, kinetics analysis and mutagenesis of ATP/CTP:tRNA nucleotidyltransferase from Methanococcus jannaschii

Janusz M. Bujnicki, Megan A. Albert, Donald J. Nelson, David L. Thurlow

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2003

Language:

english

File:

PDF, 1017 KB

english, 2003

43

Structure, evolution, and inhibitor interaction of S-adenosyl-L-homocysteine hydrolase from Plasmodium falciparum

Janusz M. Bujnicki, Sean T. Prigge, Diana Caridha, Peter K. Chiang

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2003

Language:

english

File:

PDF, 862 KB

english, 2003

44

Identification of amino acids important for target recognition by the DNA:m5C methyltransferase M.NgoPII by alanine-scanning mutagenesis of residues at the protein–DNA interface

Monika Radlinska, Aneta Kondrzycka-Dada, Andrzej Piekarowicz, Janusz M. Bujnicki

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2005

Language:

english

File:

PDF, 476 KB

english, 2005

45

Sequence–structure–function relationships of a tRNA (m7G46) methyltransferase studied by homology modeling and site-directed mutagenesis

Elżbieta Purta, Françoise van Vliet, Catherine Tricot, Lara G. De Bie, Marcin Feder, Krzysztof Skowronek, Louis Droogmans, Janusz M. Bujnicki

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2005

Language:

english

File:

PDF, 479 KB

english, 2005

46

Generalized protein structure prediction based on combination of fold-recognition with de novo folding and evaluation of models

Andrzej Koliński, Janusz M. Bujnicki

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2005

Language:

english

File:

PDF, 988 KB

english, 2005

47

Theoretical model of restriction endonuclease HpaI in complex with DNA, predicted by fold recognition and validated by site-directed mutagenesis

Krzysztof J. Skowronek, Jan Kosinski, Janusz M. Bujnicki

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2006

Language:

english

File:

PDF, 551 KB

english, 2006

48

Phylogenetic analysis of haloalkane dehalogenases

Eva Chovancová, Jan Kosinski, Janusz M. Bujnicki, Jiří Damborský

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2007

Language:

english

File:

PDF, 937 KB

english, 2007

49

A model of restriction endonuclease MvaI in complex with DNA: A template for interpretation of experimental data and a guide for specificity engineering

Jan Kosinski, Elena Kubareva, Janusz M. Bujnicki

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2007

Language:

english

File:

PDF, 885 KB

english, 2007

50

Structural bioinformatics analysis of enzymes involved in the biosynthesis pathway of the hypermodified nucleoside ms2io6A37 in tRNA

Katarzyna H. Kaminska, Urszula Baraniak, Michal Boniecki, Katarzyna Nowaczyk, Anna Czerwoniec, Janusz M. Bujnicki

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2008

Language:

english

File:

PDF, 1.31 MB

english, 2008

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