Full name : Damborsky Jiri
First name : Jiri
Mail : Loschmidt Laboratories, Department of Experimental Biology and Research Centre for Toxic Compounds in the Environment RECETOX, Faculty of Science, Masaryk University, Kamenice 5\/A13, 625 00 Brno
Zip Code :
City :
Country : Czech Republic
Email : jiri@chemi.muni.cz
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Website :
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Comment
| Title : Azobenzene-Based Photoswitchable Substrates for Advanced Mechanistic Studies of Model Haloalkane Dehalogenase Enzyme Family - Slanska_2024_ACS.Catal_14_11635 |
| Author(s) : Slanska M , Stackova L , Marques SM , Stacko P , Martinek M , Jilek L , Toul M , Damborsky J , Bednar D , Klan P , Prokop Z |
| Ref : ACS Catal , 14 :11635 , 2024 |
| Abstract : |
| PubMedSearch : Slanska_2024_ACS.Catal_14_11635 |
| PubMedID: 39114093 |
| Gene_locus related to this paper: 9cyan-q6dnd9 |
| Title : Exploring new galaxies: Perspectives on the discovery of novel PET-degrading enzymes - Mican_2024_Appl.Catal.B.Environmental_342_123404 |
| Author(s) : Mican J , Jaradat DMM , Liu W , Weber G , Mazurenko S , Bornscheuer UT , Damborsky J , Wei R , Bednar D |
| Ref : Applied Catalysis B: Environmental , 342 :123404 , 2024 |
| Abstract : |
| PubMedSearch : Mican_2024_Appl.Catal.B.Environmental_342_123404 |
| PubMedID: |
| Title : Bacterial Lactonases ZenA with Noncanonical Structural Features Hydrolyse the Mycotoxin Zearalenone - Fruhauf_2024_ACS.Catal_14_3392 |
| Author(s) : Fruhauf S , Puhringer D , Thamhesl M , Fajtl P , Kunz-Vekiru E , Hobartner-Gussl A , Schatzmayr G , Adam G , Damborsky J , Djinovic-Carugo K , Prokop Z , Moll WD |
| Ref : ACS Catal , 14 :3392 , 2024 |
| Abstract : |
| PubMedSearch : Fruhauf_2024_ACS.Catal_14_3392 |
| PubMedID: 38449531 |
| Gene_locus related to this paper: 9actn-ZenA , 9noca-a0aa46n777 |
| Title : Multimeric structure of a subfamily III haloalkane dehalogenase-like enzyme solved by combination of cryo-EM and X-ray crystallography - Chmelova_2023_Protein.Sci__e4751 |
| Author(s) : Chmelova K , Gao T , Polak M , Schenkmayerova A , Croll TI , Shaikh TR , Skarupova J , Chaloupkova R , Diederichs K , Read RJ , Damborsky J , Novacek J , Marek M |
| Ref : Protein Science , :e4751 , 2023 |
| Abstract : |
| PubMedSearch : Chmelova_2023_Protein.Sci__e4751 |
| PubMedID: 37574754 |
| Gene_locus related to this paper: halmt-DhmeAIII |
| Title : Atypical homodimerization revealed by the structure of the (S)-enantioselective haloalkane dehalogenase DmmarA from Mycobacterium marinum - Snajdarova_2023_Acta.Crystallogr.D.Struct.Biol__ |
| Author(s) : Snajdarova K , Marques SM , Damborsky J , Bednar D , Marek M |
| Ref : Acta Crystallographica D Struct Biol , : , 2023 |
| Abstract : |
| PubMedSearch : Snajdarova_2023_Acta.Crystallogr.D.Struct.Biol__ |
| PubMedID: 37860958 |
| Title : Deciphering Enzyme Mechanisms with Engineered Ancestors and Substrate Analogues - Gao_2023_ChemCatChem_15_e202300745 |
| Author(s) : Gao T , Damborsky J , Janin YL , Marek M |
| Ref : ChemCatChem , 15 :e202300745 , 2023 |
| Abstract : |
| PubMedSearch : Gao_2023_ChemCatChem_15_e202300745 |
| PubMedID: |
| Gene_locus related to this paper: renre-luc |
| Title : Study of Protein Conformational Dynamics Using Hydrogen\/Deuterium Exchange Mass Spectrometry - Uhrik_2023_Methods.Mol.Biol_2652_293 |
| Author(s) : Uhrik L , Henek T , Planas-Iglesias J , Kucera J , Damborsky J , Marek M , Hernychova L |
| Ref : Methods Mol Biol , 2652 :293 , 2023 |
| Abstract : |
| PubMedSearch : Uhrik_2023_Methods.Mol.Biol_2652_293 |
| PubMedID: 37093484 |
| Title : Catalytic mechanism for Renilla-type luciferases - Schenkmayerova_2023_Nat.Catal_6_23 |
| Author(s) : Schenkmayerova A , Toul M , Pluskal D , Baatallah R , Gagnot G , Pinto GP , Santana VT , Stuchla M , Neugebauer P , Chaiyen P , Damborsky J , Bednar D , Janin YL , Prokop Z , Marek M |
| Ref : Nature Catalysis , 6 :23 , 2023 |
| Abstract : |
| PubMedSearch : Schenkmayerova_2023_Nat.Catal_6_23 |
| PubMedID: |
| Gene_locus related to this paper: 9zzzz-AncHLDRLuc2 , renre-luc |
| Title : Advancing Enzyme's Stability and Catalytic Efficiency through Synergy of Force-Field Calculations, Evolutionary Analysis, and Machine Learning - Kunka_2023_ACS.Catal_13_12506 |
| Author(s) : Kunka A , Marques SM , Havlasek M , Vasina M , Velatova N , Cengelova L , Kovar D , Damborsky J , Marek M , Bednar D , Prokop Z |
| Ref : ACS Catal , 13 :12506 , 2023 |
| Abstract : |
| PubMedSearch : Kunka_2023_ACS.Catal_13_12506 |
| PubMedID: 37822856 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Tools for computational design and high-throughput screening of therapeutic enzymes - Vasina_2022_Adv.Drug.Deliv.Rev_183_114143 |
| Author(s) : Vasina M , Velecky J , Planas-Iglesias J , Marques SM , Skarupova J , Damborsky J , Bednar D , Mazurenko S , Prokop Z |
| Ref : Adv Drug Deliv Rev , 183 :114143 , 2022 |
| Abstract : |
| PubMedSearch : Vasina_2022_Adv.Drug.Deliv.Rev_183_114143 |
| PubMedID: 35167900 |
| Title : Multiple Substrate Binding Mode-Guided Engineering of a Thermophilic PET Hydrolase - Pfaff_2022_ACS.Catalysis_12_9790 |
| Author(s) : Pfaff L , Gao J , Li Z , Jackering A , Weber G , Mican J , Chen Y , Dong W , Han X , Feiler CG , Ao YF , Badenhorst CPS , Bednar D , Palm GJ , Lammers M , Damborsky J , Strodel B , Liu W , Bornscheuer UT , Wei R |
| Ref : ACS Catal , 12 :9790 , 2022 |
| Abstract : |
| PubMedSearch : Pfaff_2022_ACS.Catalysis_12_9790 |
| PubMedID: 35966606 |
| Gene_locus related to this paper: 9firm-PHL7 |
| Title : Mechanism-Based Design of Efficient PET Hydrolases - Wei_2022_ACS.Catal_12_3382 |
| Author(s) : Wei R , von Haugwitz G , Pfaff L , Mican J , Badenhorst CPS , Liu W , Weber G , Austin HP , Bednar D , Damborsky J , Bornscheuer UT |
| Ref : ACS Catal , 12 :3382 , 2022 |
| Abstract : |
| PubMedSearch : Wei_2022_ACS.Catal_12_3382 |
| PubMedID: 35368328 |
| Title : Structural Insights into (Tere)phthalate-Ester Hydrolysis by a Carboxylesterase and Its Role in Promoting PET Depolymerization - von Haugwitz_2022_ACS.Catal_12_15259 |
| Author(s) : von Haugwitz G , Han X , Pfaff L , Li Q , Wei H , Gao J , Methling K , Ao Y , Brack Y , Jan Mican J , Feiler CG , Weiss MS , Bednar D , Palm GJ , Lalk M , Lammers M , Damborsky J , Weber G , Liu W , Bornscheuer UT , Wei R |
| Ref : ACS Catal , 12 :15259 , 2022 |
| Abstract : |
| PubMedSearch : von Haugwitz_2022_ACS.Catal_12_15259 |
| PubMedID: 36570084 |
| Gene_locus related to this paper: thefu-1831 |
| Title : A catalytic mechanism for Renilla-type bioluminescence - Schenkmayerova_2022_Biorxiv__ |
| Author(s) : Schenkmayerova A , Toul M , Pluskal D , Baatallah R , Gagnot G , Pinto GP , Santana VT , Stuchla M , Neugebauer P , Chaiyen P , Damborsky J , Bednar D , Janin YL , Prokop Z , Marek M |
| Ref : Biorxiv , : , 2022 |
| Abstract : |
| PubMedSearch : Schenkmayerova_2022_Biorxiv__ |
| PubMedID: |
| Gene_locus related to this paper: 9zzzz-AncHLDRLuc2 , renre-luc |
| Title : CalFitter 2.0: Leveraging the power of singular value decomposition to analyse protein thermostability - Kunka_2022_Nucleic.Acids.Res__ |
| Author(s) : Kunka A , Lacko D , Stourac J , Damborsky J , Prokop Z , Mazurenko S |
| Ref : Nucleic Acids Research , : , 2022 |
| Abstract : |
| PubMedSearch : Kunka_2022_Nucleic.Acids.Res__ |
| PubMedID: 35580052 |
| Title : LoopGrafter: a web tool for transplanting dynamical loops for protein engineering - Planas-Iglesias_2022_Nucleic.Acids.Res__ |
| Author(s) : Planas-Iglesias J , Opaleny F , Ulbrich P , Stourac J , Sanusi Z , Pinto GP , Schenkmayerova A , Byska J , Damborsky J , Kozlikova B , Bednar D |
| Ref : Nucleic Acids Research , : , 2022 |
| Abstract : |
| PubMedSearch : Planas-Iglesias_2022_Nucleic.Acids.Res__ |
| PubMedID: 35438789 |
| Title : Structure-activity relationships of dually-acting acetylcholinesterase inhibitors derived from tacrine on N-methyl-d-Aspartate receptors - Gorecki_2021_Eur.J.Med.Chem_219_113434 |
| Author(s) : Gorecki L , Misiachna A , Damborsky J , Dolezal R , Korabecny J , Cejkova L , Hakenova K , Chvojkova M , Karasova JZ , Prchal L , Novak M , Kolcheva M , Kortus S , Vales K , Horak M , Soukup O |
| Ref : Eur Journal of Medicinal Chemistry , 219 :113434 , 2021 |
| Abstract : |
| PubMedSearch : Gorecki_2021_Eur.J.Med.Chem_219_113434 |
| PubMedID: 33892271 |
| Title : Engineering the protein dynamics of an ancestral luciferase - Schenkmayerova_2021_Nat.Commun_12_3616 |
| Author(s) : Schenkmayerova A , Pinto GP , Toul M , Marek M , Hernychova L , Planas-Iglesias J , Daniel Liskova V , Pluskal D , Vasina M , Emond S , Dorr M , Chaloupkova R , Bednar D , Prokop Z , Hollfelder F , Bornscheuer UT , Damborsky J |
| Ref : Nat Commun , 12 :3616 , 2021 |
| Abstract : |
| PubMedSearch : Schenkmayerova_2021_Nat.Commun_12_3616 |
| PubMedID: 34127663 |
| Gene_locus related to this paper: renre-luc |
| Title : Description of Transport Tunnel in Haloalkane Dehalogenase Variant LinB D147C+L177C from Sphingobium japonicum - Iermak_2021_Catalysts_11_5 |
| Author(s) : Iermak I , Degtjarik O , Havlickova P , Kuty M , Chaloupkova R , Damborsky J , Prudnikova T , Smatanova IK |
| Ref : Catalysts , 11 :5 , 2021 |
| Abstract : |
| PubMedSearch : Iermak_2021_Catalysts_11_5 |
| PubMedID: |
| Gene_locus related to this paper: sphpi-linb |
| Title : Substrate inhibition by the blockage of product release and its control by tunnel engineering - Kokkonen_2021_RSC.Chem.Biol_2_645 |
| Author(s) : Kokkonen P , Beier A , Mazurenko S , Damborsky J , Bednar D , Prokop Z |
| Ref : RSC Chemical Biology , 2 :645 , 2021 |
| Abstract : |
| PubMedSearch : Kokkonen_2021_RSC.Chem.Biol_2_645 |
| PubMedID: 34458806 |
| Gene_locus related to this paper: sphpi-linb |
| Title : Promiscuous Dehalogenase Activity of the Epoxide Hydrolase CorEH from Corynebacterium sp. C12 - Schuiten_2021_ACS.Catal_11_6113 |
| Author(s) : Schuiten ED , Badenhorst CPS , Palm GJ , Berndt L , Lammers M , Mican J , Bednar D , Damborsky J , Bornscheuer UT |
| Ref : ACS Catal , 11 :6113 , 2021 |
| Abstract : |
| PubMedSearch : Schuiten_2021_ACS.Catal_11_6113 |
| PubMedID: |
| Gene_locus related to this paper: corsp-cEH |
| Title : Computational Enzyme Stabilization Can Affect Folding Energy Landscapes and Lead to Catalytically Enhanced Domain-Swapped Dimers - Markova_2021_ACS.Catal_11_12864 |
| Author(s) : Markova K , Kunka A , Chmelova K , Havlasek M , Babkova P , Marques SM , Vasina M , Planas-Iglesias J , Chaloupkova R , Bednar D , Prokop Z , Damborsky J , Marek M |
| Ref : ACS Catal , 11 :12864 , 2021 |
| Abstract : |
| PubMedSearch : Markova_2021_ACS.Catal_11_12864 |
| PubMedID: |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : The tetrameric structure of the novel haloalkane dehalogenase DpaA from Paraglaciecola agarilytica NO2 - Mazur_2021_Acta.Crystallogr.D.Struct.Biol_77_347 |
| Author(s) : Mazur A , Prudnikova T , Grinkevich P , Mesters JR , Mrazova D , Chaloupkova R , Damborsky J , Kuty M , Kolenko P , Kuta Smatanova I |
| Ref : Acta Crystallographica D Struct Biol , 77 :347 , 2021 |
| Abstract : |
| PubMedSearch : Mazur_2021_Acta.Crystallogr.D.Struct.Biol_77_347 |
| PubMedID: 33645538 |
| Gene_locus related to this paper: 9alte-k6xnl5 |
| Title : Functional Annotation of an Enzyme Family by Integrated Strategy Combining Bioinformatics with Microanalytical and Microfluidic Technologies - Vanacek_2021_bioRxiv__ |
| Author(s) : Vanacek P , Vasina M , Hon J , Kovar D , Faldynova H , Kunka A , Buryska T , Badenhorst CPS , Mazurenko S , Bednar D , Bornscheuer UT , Damborsky J , Prokop Z |
| Ref : Biorxiv , : , 2021 |
| Abstract : |
| PubMedSearch : Vanacek_2021_bioRxiv__ |
| PubMedID: |
| Title : Structural Analysis of the Ancestral Haloalkane Dehalogenase AncLinB-DmbA - Mazur_2021_Int.J.Mol.Sci_22_11992 |
| Author(s) : Mazur A , Grinkevich P , Chaloupkova R , Havlickova P , Kascakova B , Kuty M , Damborsky J , Kuta Smatanova I , Prudnikova T |
| Ref : Int J Mol Sci , 22 : , 2021 |
| Abstract : |
| PubMedSearch : Mazur_2021_Int.J.Mol.Sci_22_11992 |
| PubMedID: 34769421 |
| Gene_locus related to this paper: 9zzzz-AncLinB |
| Title : Web-based tools for computational enzyme design - Marques_2021_Curr.Opin.Struct.Biol_69_19 |
| Author(s) : Marques SM , Planas-Iglesias J , Damborsky J |
| Ref : Current Opinion in Structural Biology , 69 :19 , 2021 |
| Abstract : |
| PubMedSearch : Marques_2021_Curr.Opin.Struct.Biol_69_19 |
| PubMedID: 33667757 |
| Title : Stabilization of Haloalkane Dehalogenase Structure by Interfacial Interaction with Ionic Liquids - Shaposhnikova_2021_Crystals_11_1052 |
| Author(s) : Shaposhnikova A , Kuty M , Chaloupkova R , Damborsky J , Smatanova IK , Minofar B , Prudnikova T |
| Ref : Crystals , 11 :1052 , 2021 |
| Abstract : |
| PubMedSearch : Shaposhnikova_2021_Crystals_11_1052 |
| PubMedID: |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Decoding the intricate network of molecular interactions of a hyperstable engineered biocatalyst - Markova_2020_Chem.Sci_11_11162 |
| Author(s) : Markova K , Chmelova K , Marques SM , Carpentier P , Bednar D , Damborsky J , Marek M |
| Ref : Chem Sci , 11 :11162 , 2020 |
| Abstract : |
| PubMedSearch : Markova_2020_Chem.Sci_11_11162 |
| PubMedID: 34094357 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Structural and catalytic effects of surface loop-helix transplantation within haloalkane dehalogenase family - Marek_2020_Comput.Struct.Biotechnol.J_18_1352 |
| Author(s) : Marek M , Chaloupkova R , Prudnikova T , Sato Y , Rezacova P , Nagata Y , Kuta Smatanova I , Damborsky J |
| Ref : Comput Struct Biotechnol J , 18 :1352 , 2020 |
| Abstract : |
| PubMedSearch : Marek_2020_Comput.Struct.Biotechnol.J_18_1352 |
| PubMedID: 32612758 |
| Gene_locus related to this paper: brael-e2rv62 |
| Title : Engineering Protein Dynamics of Ancestral Luciferase - Schenkmayerova_2020_Chemrxiv__ |
| Author(s) : Schenkmayerova A , Pinto GP , Toul M , Marek M , Hernychova L , Planas-Iglesias J , Liskova V , Pluskal D , Vasina M , Emond S , Dorr M , Chaloupkova R , Bednar D , Prokop Z , Hollfelder F , Bornscheuer UT , Damborsky J |
| Ref : Chemrxiv , : , 2020 |
| Abstract : |
| PubMedSearch : Schenkmayerova_2020_Chemrxiv__ |
| PubMedID: |
| Gene_locus related to this paper: renre-luc |
| Title : Exploration of enzyme diversity: High-throughput techniques for protein production and microscale biochemical characterization - Vasina_2020_Methods.Enzymol_643_51 |
| Author(s) : Vasina M , Vanacek P , Damborsky J , Prokop Z |
| Ref : Methods Enzymol , 643 :51 , 2020 |
| Abstract : |
| PubMedSearch : Vasina_2020_Methods.Enzymol_643_51 |
| PubMedID: 32896287 |
| Title : EnzymeMiner: automated mining of soluble enzymes with diverse structures, catalytic properties and stabilities - Hon_2020_Nucleic.Acids.Res__ |
| Author(s) : Hon J , Borko S , Stourac J , Prokop Z , Zendulka J , Bednar D , Martinek T , Damborsky J |
| Ref : Nucleic Acids Research , : , 2020 |
| Abstract : |
| PubMedSearch : Hon_2020_Nucleic.Acids.Res__ |
| PubMedID: 32392342 |
| Title : A Haloalkane Dehalogenase from Saccharomonospora viridis Strain DSM 43017, a Compost Bacterium with Unusual Catalytic Residues, Unique (S)-Enantiopreference, and High Thermostability - Chmelova_2020_Appl.Environ.Microbiol_86_ |
| Author(s) : Chmelova K , Sebestova E , Liskova V , Beier A , Bednar D , Prokop Z , Chaloupkova R , Damborsky J |
| Ref : Applied Environmental Microbiology , 86 : , 2020 |
| Abstract : |
| PubMedSearch : Chmelova_2020_Appl.Environ.Microbiol_86_ |
| PubMedID: 32561584 |
| Gene_locus related to this paper: sacvd-DsvA |
| Title : Structures of hyperstable ancestral haloalkane dehalogenases show restricted conformational dynamics - Babkova_2020_Comput.Struct.Biotechnol.J_18_1497 |
| Author(s) : Babkova P , Dunajova Z , Chaloupkova R , Damborsky J , Bednar D , Marek M |
| Ref : Comput Struct Biotechnol J , 18 :1497 , 2020 |
| Abstract : |
| PubMedSearch : Babkova_2020_Comput.Struct.Biotechnol.J_18_1497 |
| PubMedID: 32637047 |
| Gene_locus related to this paper: 9bact-AncHLD3 , 9bact-AncHLD2 , 9bact-AncHLD5 |
| Title : Fluorescent substrates for haloalkane dehalogenases: Novel probes for mechanistic studies and protein labeling - Dockalova_2020_Comput.Struct.Biotechnol.J_18_922 |
| Author(s) : Dockalova V , Sanchez-Carnerero EM , Dunajova Z , Palao E , Slanska M , Buryska T , Damborsky J , Klan P , Prokop Z |
| Ref : Comput Struct Biotechnol J , 18 :922 , 2020 |
| Abstract : |
| PubMedSearch : Dockalova_2020_Comput.Struct.Biotechnol.J_18_922 |
| PubMedID: 32346465 |
| Title : The impact of tunnel mutations on enzymatic catalysis depends on the tunnel-substrate complementarity and the rate-limiting step - Kokkonen_2020_Comput.Struct.Biotechnol.J_18_805 |
| Author(s) : Kokkonen P , Slanska M , Dockalova V , Pinto GP , Sanchez-Carnerero EM , Damborsky J , Klan P , Prokop Z , Bednar D |
| Ref : Comput Struct Biotechnol J , 18 :805 , 2020 |
| Abstract : |
| PubMedSearch : Kokkonen_2020_Comput.Struct.Biotechnol.J_18_805 |
| PubMedID: 32308927 |
| Title : Crystallization and Crystallographic Analysis of a Bradyrhizobium Elkanii USDA94 Haloalkane Dehalogenase Variant with an Eliminated Halide-Binding Site - Pudnikova_2019_Crystals_9_375 |
| Author(s) : Prudnikova T , Kascakova B , Mesters JR , Grinkevich P , Havlickova P , Mazur A , Shaposhnikova A , Chaloupkova R , Damborsky J , Kuty M , Smatanova IK |
| Ref : , 9 :375 , 2019 |
| Abstract : |
| PubMedSearch : Pudnikova_2019_Crystals_9_375 |
| PubMedID: |
| Gene_locus related to this paper: brael-e2rv62 |
| Title : Controlled Oil\/Water Partitioning of Hydrophobic Substrates Extending the Bioanalytical Applications of Droplet-Based Microfluidics - Buryska_2019_Anal.Chem_91_10008 |
| Author(s) : Buryska T , Vasina M , Gielen F , Vanacek P , van Vliet L , Jezek J , Pilat Z , Zemanek P , Damborsky J , Hollfelder F , Prokop Z |
| Ref : Analytical Chemistry , 91 :10008 , 2019 |
| Abstract : |
| PubMedSearch : Buryska_2019_Anal.Chem_91_10008 |
| PubMedID: 31240908 |
| Title : Light-Emitting Dehalogenases: Reconstruction of Multifunctional Biocatalysts - Chaloupkova_2019_ACS.Catal_9_48103 |
| Author(s) : Chaloupkova, R , Liskova V , Tool M , Markova K , Sebestova E , Hernychova L , Marek M , Pinto GP , Pluskal D , Waterman J , Prokop Z , Damborsky J |
| Ref : ACS Catal , 9 :4810 , 2019 |
| Abstract : |
| PubMedSearch : Chaloupkova_2019_ACS.Catal_9_48103 |
| PubMedID: |
| Gene_locus related to this paper: 9zzzz-AncHLDRLuc2 , 9zzzz-AncHLDRLuc , renre-luc |
| Title : Crystal structure of the cold-adapted haloalkane dehalogenase DpcA from Psychrobacter cryohalolentis K5 - Tratsiak_2019_Acta.Crystallogr.F.Struct.Biol.Commun_75_324 |
| Author(s) : Tratsiak K , Prudnikova T , Drienovska I , Damborsky J , Brynda J , Pachl P , Kuty M , Chaloupkova R , Rezacova P , Kuta Smatanova I |
| Ref : Acta Crystallographica F Struct Biol Commun , 75 :324 , 2019 |
| Abstract : |
| PubMedSearch : Tratsiak_2019_Acta.Crystallogr.F.Struct.Biol.Commun_75_324 |
| PubMedID: 31045561 |
| Gene_locus related to this paper: psyck-q1qbb9 |
| Title : Exploring the challenges of computational enzyme design by rebuilding the active site of a dehalogenase - Jindal_2019_Proc.Natl.Acad.Sci.U.S.A_116_389 |
| Author(s) : Jindal G , Slanska K , Kolev V , Damborsky J , Prokop Z , Warshel A |
| Ref : Proc Natl Acad Sci U S A , 116 :389 , 2019 |
| Abstract : |
| PubMedSearch : Jindal_2019_Proc.Natl.Acad.Sci.U.S.A_116_389 |
| PubMedID: 30587585 |
| Gene_locus related to this paper: xanau-halo1 |
| Title : Deciphering the Structural Basis of High Thermostability of Dehalogenase from Psychrophilic Bacterium Marinobacter sp. ELB17 - Chrast_2019_Microorganisms_7_ |
| Author(s) : Chrast L , Tratsiak K , Planas-Iglesias J , Daniel L , Prudnikova T , Brezovsky J , Bednar D , Kuta Smatanova I , Chaloupkova R , Damborsky J |
| Ref : Microorganisms , 7 : , 2019 |
| Abstract : |
| PubMedSearch : Chrast_2019_Microorganisms_7_ |
| PubMedID: 31661858 |
| Gene_locus related to this paper: 9alte-a3jb27 |
| Title : A Haloalkane Dehalogenase from a Marine Microbial Consortium Possessing Exceptionally Broad Substrate Specificity - Buryska_2018_Appl.Environ.Microbiol_84_ |
| Author(s) : Buryska T , Babkova P , Vavra O , Damborsky J , Prokop Z |
| Ref : Applied Environmental Microbiology , 84 : , 2018 |
| Abstract : |
| PubMedSearch : Buryska_2018_Appl.Environ.Microbiol_84_ |
| PubMedID: 29101190 |
| Gene_locus related to this paper: 9cyan-q6dnd9 |
| Title : Computational Study of Protein-Ligand Unbinding for Enzyme Engineering - Marques_2018_Front.Chem_6_650 |
| Author(s) : Marques SM , Bednar D , Damborsky J |
| Ref : Front Chem , 6 :650 , 2018 |
| Abstract : |
| PubMedSearch : Marques_2018_Front.Chem_6_650 |
| PubMedID: 30671430 |
| Title : Detection of Chloroalkanes by Surface-Enhanced Raman Spectroscopy in Microfluidic Chips - Pilat_2018_Sensors.(Basel)_18_ |
| Author(s) : Pilat Z , Kizovsky M , Jezek J , Kratky S , Sobota J , Siler M , Samek O , Buryska T , Vanacek P , Damborsky J , Prokop Z , Zemanek P |
| Ref : Sensors (Basel) , 18 : , 2018 |
| Abstract : |
| PubMedSearch : Pilat_2018_Sensors.(Basel)_18_ |
| PubMedID: 30249041 |
| Title : Sensitive operation of enzyme-based biodevices by advanced signal processing - Mazurenko_2018_PLoS.One_13_e0198913 |
| Author(s) : Mazurenko S , Bidmanova S , Kotlanova M , Damborsky J , Prokop Z |
| Ref : PLoS ONE , 13 :e0198913 , 2018 |
| Abstract : |
| PubMedSearch : Mazurenko_2018_PLoS.One_13_e0198913 |
| PubMedID: 29912920 |
| Title : Development of fluorescent assay for monitoring of dehalogenase activity - Nevolova_2018_Biotechnol.J__e1800144 |
| Author(s) : Nevolova S , Manaskova E , Mazurenko S , Damborsky J , Prokop Z |
| Ref : Biotechnol J , :e1800144 , 2018 |
| Abstract : |
| PubMedSearch : Nevolova_2018_Biotechnol.J__e1800144 |
| PubMedID: 30052322 |
| Title : Conformational changes allow processing of bulky substrates by a haloalkane dehalogenase with a small and buried active site - Kokkonen_2018_J.Biol.Chem_293_11505 |
| Author(s) : Kokkonen P , Bednar D , Dockalova V , Prokop Z , Damborsky J |
| Ref : Journal of Biological Chemistry , 293 :11505 , 2018 |
| Abstract : |
| PubMedSearch : Kokkonen_2018_J.Biol.Chem_293_11505 |
| PubMedID: 29858243 |
| Gene_locus related to this paper: xanau-halo1 |
| Title : Impact of the access tunnel engineering on catalysis is strictly ligand-specific - Kaushik_2018_FEBS.J_285_1456 |
| Author(s) : Kaushik S , Marques SM , Khirsariya P , Paruch K , Libichova L , Brezovsky J , Prokop Z , Chaloupkova R , Damborsky J |
| Ref : Febs J , 285 :1456 , 2018 |
| Abstract : |
| PubMedSearch : Kaushik_2018_FEBS.J_285_1456 |
| PubMedID: 29478278 |
| Title : Kinetics of binding of fluorescent ligands to enzymes with engineered access tunnels - Kaushik_2017_FEBS.J_284_134 |
| Author(s) : Kaushik S , Prokop Z , Damborsky J , Chaloupkova R |
| Ref : Febs J , 284 :134 , 2017 |
| Abstract : |
| PubMedSearch : Kaushik_2017_FEBS.J_284_134 |
| PubMedID: 27863020 |
| Title : Ancestral Haloalkane Dehalogenases Show Robustness and Unique Substrate Specificity - Babkova_2017_Chembiochem_18_1448 |
| Author(s) : Babkova P , Sebestova E , Brezovsky J , Chaloupkova R , Damborsky J |
| Ref : Chembiochem , 18 :1448 , 2017 |
| Abstract : |
| PubMedSearch : Babkova_2017_Chembiochem_18_1448 |
| PubMedID: 28419658 |
| Gene_locus related to this paper: 9bact-AncHLD5 |
| Title : Catalytic Cycle of Haloalkane Dehalogenases Toward Unnatural Substrates Explored by Computational Modeling - Marques_2017_J.Chem.Inf.Model_57_1970 |
| Author(s) : Marques SM , Dunajova Z , Prokop Z , Chaloupkova R , Brezovsky J , Damborsky J |
| Ref : J Chem Inf Model , 57 :1970 , 2017 |
| Abstract : |
| PubMedSearch : Marques_2017_J.Chem.Inf.Model_57_1970 |
| PubMedID: 28696117 |
| Title : Metagenome-derived haloalkane dehalogenases with novel catalytic properties - Kotik_2017_Appl.Microbiol.Biotechnol_101_6385 |
| Author(s) : Kotik M , Vanacek P , Kunka A , Prokop Z , Damborsky J |
| Ref : Applied Microbiology & Biotechnology , 101 :6385 , 2017 |
| Abstract : |
| PubMedSearch : Kotik_2017_Appl.Microbiol.Biotechnol_101_6385 |
| PubMedID: 28674849 |
| Gene_locus related to this paper: 9bact-v5ln96 , 9bact-v5llz5 , 9bact-v5llk8 |
| Title : Different Structural Origins of the Enantioselectivity of Haloalkane Dehalogenases toward Linear beta-Haloalkanes: Open-Solvated versus Occluded-Desolvated Active Sites - Liskova_2017_Angew.Chem.Int.Ed.Engl_56_4719 |
| Author(s) : Liskova V , Stepankova V , Bednar D , Brezovsky J , Prokop Z , Chaloupkova R , Damborsky J |
| Ref : Angew Chem Int Ed Engl , 56 :4719 , 2017 |
| Abstract : |
| PubMedSearch : Liskova_2017_Angew.Chem.Int.Ed.Engl_56_4719 |
| PubMedID: 28334478 |
| Title : Discovery of Novel Haloalkane Dehalogenase Inhibitors - Buryska_2016_Appl.Environ.Microbiol_82_1958 |
| Author(s) : Buryska T , Daniel L , Kunka A , Brezovsky J , Damborsky J , Prokop Z |
| Ref : Applied Environmental Microbiology , 82 :1958 , 2016 |
| Abstract : |
| PubMedSearch : Buryska_2016_Appl.Environ.Microbiol_82_1958 |
| PubMedID: 26773086 |
| Title : Engineering a de novo transport tunnel - Brezovsky_2016_ACS.Catal_6_7597 |
| Author(s) : Brezovsky J , Babkova P , Degtjarik O , Fortova A , Gora A , Iermak I , Rezacova P , Dvorak P , Kuta-Smatanova I , Prokop Z , Chaloupkova R , Damborsky J |
| Ref : ACS Catal , 6 :7597 , 2016 |
| Abstract : |
| PubMedSearch : Brezovsky_2016_ACS.Catal_6_7597 |
| PubMedID: |
| Gene_locus related to this paper: sphpi-linb |
| Title : Fluorescence-based biosensor for monitoring of environmental pollutants: From concept to field application - Bidmanova_2016_Biosens.Bioelectron_84_97 |
| Author(s) : Bidmanova S , Kotlanova M , Rataj T , Damborsky J , Trtilek M , Prokop Z |
| Ref : Biosensors & Bioelectronics , 84 :97 , 2016 |
| Abstract : |
| PubMedSearch : Bidmanova_2016_Biosens.Bioelectron_84_97 |
| PubMedID: 26725215 |
| Title : Suppression of protein inactivation during freezing by minimizing pH changes using ionic cryoprotectants - Krauskova_2016_Int.J.Pharm_509_41 |
| Author(s) : Krauskova L , Prochazkova J , Klaskova M , Filipova L , Chaloupkova R , Maly S , Damborsky J , Heger D |
| Ref : Int J Pharm , 509 :41 , 2016 |
| Abstract : |
| PubMedSearch : Krauskova_2016_Int.J.Pharm_509_41 |
| PubMedID: 27224008 |
| Title : FireProt: Energy- and Evolution-Based Computational Design of Thermostable Multiple-Point Mutants - Bednar_2015_PLoS.Comput.Biol_11_e1004556 |
| Author(s) : Bednar D , Beerens K , Sebestova E , Bendl J , Khare S , Chaloupkova R , Prokop Z , Brezovsky J , Baker D , Damborsky J |
| Ref : PLoS Comput Biol , 11 :e1004556 , 2015 |
| Abstract : |
| PubMedSearch : Bednar_2015_PLoS.Comput.Biol_11_e1004556 |
| PubMedID: 26529612 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Balancing the stability-activity trade-off by fine-tuning dehalogenase access tunnels - Liskova_2015_ChemCatChem_7_648 |
| Author(s) : Liskova V , Bednar D , Prudnikova T , Rezacova P , Koudelakova T , Sebestova E , Kuta-Smatanova I , Brezovsky J , Chaloupkova R , Damborsky J |
| Ref : ChemCatChem , 7 :648 , 2015 |
| Abstract : |
| PubMedSearch : Liskova_2015_ChemCatChem_7_648 |
| PubMedID: |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Site-specific analysis of protein hydration based on unnatural amino acid fluorescence - Amaro_2015_J.Am.Chem.Soc_137_4988 |
| Author(s) : Amaro M , Brezovsky J , Kovacova S , Sykora J , Bednar D , Nemec V , Liskova V , Kurumbang NP , Beerens K , Chaloupkova R , Paruch K , Hof M , Damborsky J |
| Ref : Journal of the American Chemical Society , 137 :4988 , 2015 |
| Abstract : |
| PubMedSearch : Amaro_2015_J.Am.Chem.Soc_137_4988 |
| PubMedID: 25815779 |
| Title : Mechanism-based discovery of novel substrates of haloalkane dehalogenases using in silico screening - Daniel_2015_J.Chem.Inf.Model_55_54 |
| Author(s) : Daniel L , Buryska T , Prokop Z , Damborsky J , Brezovsky J |
| Ref : J Chem Inf Model , 55 :54 , 2015 |
| Abstract : |
| PubMedSearch : Daniel_2015_J.Chem.Inf.Model_55_54 |
| PubMedID: 25495415 |
| Title : Crystallographic analysis of 1,2,3-trichloropropane biodegradation by the haloalkane dehalogenase DhaA31 - Lahoda_2014_Acta.Crystallogr.D.Biol.Crystallogr_70_209 |
| Author(s) : Lahoda M , Mesters JR , Stsiapanava A , Chaloupkova R , Kuty M , Damborsky J , Kuta Smatanova I |
| Ref : Acta Crystallographica D Biol Crystallogr , 70 :209 , 2014 |
| Abstract : |
| PubMedSearch : Lahoda_2014_Acta.Crystallogr.D.Biol.Crystallogr_70_209 |
| PubMedID: 24531456 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Dynamics and hydration explain failed functional transformation in dehalogenase design - Sykora_2014_Nat.Chem.Biol_10_428 |
| Author(s) : Sykora J , Brezovsky J , Koudelakova T , Lahoda M , Fortova A , Chernovets T , Chaloupkova R , Stepankova V , Prokop Z , Smatanova IK , Hof M , Damborsky J |
| Ref : Nat Chemical Biology , 10 :428 , 2014 |
| Abstract : |
| PubMedSearch : Sykora_2014_Nat.Chem.Biol_10_428 |
| PubMedID: 24727901 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Structural and functional analysis of a novel haloalkane dehalogenase with two halide-binding sites - Chaloupkova_2014_Acta.Crystallogr.D.Biol.Crystallogr_70_1884 |
| Author(s) : Chaloupkova R , Prudnikova T , Rezacova P , Prokop Z , Koudelakova T , Daniel L , Brezovsky J , Ikeda-Ohtsubo W4 , Sato Y , Kuty M , Nagata Y , Kuta Smatanova I , Damborsky J |
| Ref : Acta Crystallographica D Biol Crystallogr , 70 :1884 , 2014 |
| Abstract : |
| PubMedSearch : Chaloupkova_2014_Acta.Crystallogr.D.Biol.Crystallogr_70_1884 |
| PubMedID: 25004965 |
| Gene_locus related to this paper: brael-e2rv62 |
| Title : Stepwise enhancement of catalytic performance of haloalkane dehalogenase LinB towards beta-hexachlorocyclohexane - Moriuchi_2014_AMB.Express_4_72 |
| Author(s) : Moriuchi R , Tanaka H , Nikawadori Y , Ishitsuka M , Ito M , Ohtsubo Y , Tsuda M , Damborsky J , Prokop Z , Nagata Y |
| Ref : AMB Express , 4 :72 , 2014 |
| Abstract : |
| PubMedSearch : Moriuchi_2014_AMB.Express_4_72 |
| PubMedID: 25401073 |
| Title : A Pseudomonas putida strain genetically engineered for 1,2,3-trichloropropane bioremediation - Samin_2014_Appl.Environ.Microbiol_80_5467 |
| Author(s) : Samin G , Pavlova M , Arif MI , Postema CP , Damborsky J , Janssen DB |
| Ref : Applied Environmental Microbiology , 80 :5467 , 2014 |
| Abstract : |
| PubMedSearch : Samin_2014_Appl.Environ.Microbiol_80_5467 |
| PubMedID: 24973068 |
| Title : Microscopic monitoring provides information on structure and properties during biocatalyst immobilization - Bidmanova_2014_Biotechnol.J_9_852 |
| Author(s) : Bidmanova S , Hrdlickova E , Jaros J , Ilkovics L , Hampl A , Damborsky J , Prokop Z |
| Ref : Biotechnol J , 9 :852 , 2014 |
| Abstract : |
| PubMedSearch : Bidmanova_2014_Biotechnol.J_9_852 |
| PubMedID: 24639415 |
| Title : Haloalkane dehalogenases: Biotechnological applications - Koudelakova_2013_Biotechnol.J_8_32 |
| Author(s) : Koudelakova T , Bidmanova S , Dvorak P , Pavelka A , Chaloupkova R , Prokop Z , Damborsky J |
| Ref : Biotechnol J , 8 :32 , 2013 |
| Abstract : |
| PubMedSearch : Koudelakova_2013_Biotechnol.J_8_32 |
| PubMedID: 22965918 |
| Title : Release of halide ions from the buried active site of the haloalkane dehalogenase LinB revealed by stopped-flow fluorescence analysis and free energy calculations - Hladilkova_2013_J.Phys.Chem.B_117_14329 |
| Author(s) : Hladilkova J , Prokop Z , Chaloupkova R , Damborsky J , Jungwirth P |
| Ref : J Phys Chem B , 117 :14329 , 2013 |
| Abstract : |
| PubMedSearch : Hladilkova_2013_J.Phys.Chem.B_117_14329 |
| PubMedID: 24151979 |
| Title : Engineering enzyme stability and resistance to an organic cosolvent by modification of residues in the access tunnel - Koudelakova_2013_Angew.Chem.Int.Ed.Engl_52_1959 |
| Author(s) : Koudelakova T , Chaloupkova R , Brezovsky J , Prokop Z , Sebestova E , Hesseler M , Khabiri M , Plevaka M , Kulik D , Kuta Smatanova I , Rezacova P , Ettrich R , Bornscheuer UT , Damborsky J |
| Ref : Angew Chem Int Ed Engl , 52 :1959 , 2013 |
| Abstract : |
| PubMedSearch : Koudelakova_2013_Angew.Chem.Int.Ed.Engl_52_1959 |
| PubMedID: 23303607 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Expansion of access tunnels and active-site cavities influence activity of haloalkane dehalogenases in organic cosolvents - Stepankova_2013_Chembiochem_14_890 |
| Author(s) : Stepankova V , Khabiri M , Brezovsky J , Pavelka A , Sykora J , Amaro M , Minofar B , Prokop Z , Hof M , Ettrich R , Chaloupkova R , Damborsky J |
| Ref : Chembiochem , 14 :890 , 2013 |
| Abstract : |
| PubMedSearch : Stepankova_2013_Chembiochem_14_890 |
| PubMedID: 23564727 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Differences in crystallization of two LinB variants from Sphingobium japonicum UT26 - Degtjarik_2013_Acta.Crystallogr.Sect.F.Struct.Biol.Cryst.Commun_69_284 |
| Author(s) : Degtjarik O , Chaloupkova R , Rezacova P , Kuty M , Damborsky J , Kuta Smatanova I |
| Ref : Acta Crystallographica Sect F Struct Biol Cryst Commun , 69 :284 , 2013 |
| Abstract : |
| PubMedSearch : Degtjarik_2013_Acta.Crystallogr.Sect.F.Struct.Biol.Cryst.Commun_69_284 |
| PubMedID: 23519805 |
| Gene_locus related to this paper: sphpi-linb |
| Title : The effect of a unique halide-stabilizing residue on the catalytic properties of haloalkane dehalogenase DatA from Agrobacterium tumefaciens C58 - Hasan_2013_FEBS.J_280_3149 |
| Author(s) : Hasan K , Gora A , Brezovsky J , Chaloupkova R , Moskalikova H , Fortova A , Nagata Y , Damborsky J , Prokop Z |
| Ref : Febs J , 280 :3149 , 2013 |
| Abstract : |
| PubMedSearch : Hasan_2013_FEBS.J_280_3149 |
| PubMedID: 23490078 |
| Title : Are time-dependent fluorescence shifts at the tunnel mouth of haloalkane dehalogenase enzymes dependent on the choice of the chromophore? - Amaro_2013_J.Phys.Chem.B_117_7898 |
| Author(s) : Amaro M , Brezovsky J , Kovacova S , Maier L , Chaloupkova R , Sykora J , Paruch K , Damborsky J , Hof M |
| Ref : J Phys Chem B , 117 :7898 , 2013 |
| Abstract : |
| PubMedSearch : Amaro_2013_J.Phys.Chem.B_117_7898 |
| PubMedID: 23781851 |
| Title : Cation-specific effects on enzymatic catalysis driven by interactions at the tunnel mouth - Stepankova_2013_J.Phys.Chem.B_117_6394 |
| Author(s) : Stepankova V , Paterova J , Damborsky J , Jungwirth P , Chaloupkova R , Heyda J |
| Ref : J Phys Chem B , 117 :6394 , 2013 |
| Abstract : |
| PubMedSearch : Stepankova_2013_J.Phys.Chem.B_117_6394 |
| PubMedID: 23627286 |
| Title : DspA from Strongylocentrotus purpuratus: The first biochemically characterized haloalkane dehalogenase of non-microbial origin - Fortova_2013_Biochimie_95_2091 |
| Author(s) : Fortova A , Sebestova E , Stepankova V , Koudelakova T , Palkova L , Damborsky J , Chaloupkova R |
| Ref : Biochimie , 95 :2091 , 2013 |
| Abstract : |
| PubMedSearch : Fortova_2013_Biochimie_95_2091 |
| PubMedID: 23939220 |
| Gene_locus related to this paper: strpu-h3hrw2 |
| Title : Interaction of organic solvents with protein structures at protein-solvent interface - Khabiri_2013_J.Mol.Model_19_4701 |
| Author(s) : Khabiri M , Minofar B , Brezovsky J , Damborsky J , Ettrich R |
| Ref : J Mol Model , 19 :4701 , 2013 |
| Abstract : |
| PubMedSearch : Khabiri_2013_J.Mol.Model_19_4701 |
| PubMedID: 22760789 |
| Title : Strategies for Stabilization of Enzymes in Organic Solvents - Stepankova_2013_ACS.Catal_3_2823 |
| Author(s) : Stepankova V , Bidmanova S , Koudelakova T , Prokop Z , Chaloupkova R , Damborsky J |
| Ref : ACS Catal , 3 :2823 , 2013 |
| Abstract : |
| PubMedSearch : Stepankova_2013_ACS.Catal_3_2823 |
| PubMedID: |
| Title : Crystallographic analysis of new psychrophilic haloalkane dehalogenases: DpcA from Psychrobacter cryohalolentis K5 and DmxA from Marinobacter sp. ELB17 - Tratsiak_2013_Acta.Crystallogr.Sect.F.Struct.Biol.Cryst.Commun_69_683 |
| Author(s) : Tratsiak K , Degtjarik O , Drienovska I , Chrast L , Rezacova P , Kuty M , Chaloupkova R , Damborsky J , Kuta Smatanova I |
| Ref : Acta Crystallographica Sect F Struct Biol Cryst Commun , 69 :683 , 2013 |
| Abstract : |
| PubMedSearch : Tratsiak_2013_Acta.Crystallogr.Sect.F.Struct.Biol.Cryst.Commun_69_683 |
| PubMedID: 23722854 |
| Gene_locus related to this paper: 9alte-a3jb27 , psyck-q1qbb9 |
| Title : Biochemical characterization of a novel haloalkane dehalogenase from a cold-adapted bacterium - Drienovska_2012_Appl.Environ.Microbiol_78_4995 |
| Author(s) : Drienovska I , Chovancova E , Koudelakova T , Damborsky J , Chaloupkova R |
| Ref : Applied Environmental Microbiology , 78 :4995 , 2012 |
| Abstract : |
| PubMedSearch : Drienovska_2012_Appl.Environ.Microbiol_78_4995 |
| PubMedID: 22582053 |
| Gene_locus related to this paper: psyck-q1qbb9 |
| Title : A single mutation in a tunnel to the active site changes the mechanism and kinetics of product release in haloalkane dehalogenase LinB - Biedermannova_2012_J.Biol.Chem_287_29062 |
| Author(s) : Biedermannova L , Prokop Z , Gora A , Chovancova E , Kovacs M , Damborsky J , Wade RC |
| Ref : Journal of Biological Chemistry , 287 :29062 , 2012 |
| Abstract : |
| PubMedSearch : Biedermannova_2012_J.Biol.Chem_287_29062 |
| PubMedID: 22745119 |
| Title : Crystallization and crystallographic analysis of the Rhodococcus rhodochrous NCIMB 13064 DhaA mutant DhaA31 and its complex with 1,2,3-trichloropropane - Lahoda_2011_Acta.Crystallogr.Sect.F.Struct.Biol.Cryst.Commun_67_397 |
| Author(s) : Lahoda M , Chaloupkova R , Stsiapanava A , Damborsky J , Kuta Smatanova I |
| Ref : Acta Crystallographica Sect F Struct Biol Cryst Commun , 67 :397 , 2011 |
| Abstract : |
| PubMedSearch : Lahoda_2011_Acta.Crystallogr.Sect.F.Struct.Biol.Cryst.Commun_67_397 |
| PubMedID: 21393851 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Crystallization and preliminary X-ray diffraction analysis of the wild-type haloalkane dehalogenase DhaA and its variant DhaA13 complexed with different ligands - Stsiapanava_2011_Acta.Crystallogr.Sect.F.Struct.Biol.Cryst.Commun_67_253 |
| Author(s) : Stsiapanava A , Chaloupkova R , Fortova A , Brynda J , Weiss MS , Damborsky J , Smatanova IK |
| Ref : Acta Crystallographica Sect F Struct Biol Cryst Commun , 67 :253 , 2011 |
| Abstract : |
| PubMedSearch : Stsiapanava_2011_Acta.Crystallogr.Sect.F.Struct.Biol.Cryst.Commun_67_253 |
| PubMedID: 21301099 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Stereoselectivity and conformational stability of haloalkane dehalogenase DbjA from Bradyrhizobium japonicum USDA110: the effect of pH and temperature - Chaloupkova_2011_FEBS.J_278_2728 |
| Author(s) : Chaloupkova R , Prokop Z , Sato Y , Nagata Y , Damborsky J |
| Ref : Febs J , 278 :2728 , 2011 |
| Abstract : |
| PubMedSearch : Chaloupkova_2011_FEBS.J_278_2728 |
| PubMedID: 21635695 |
| Title : Biochemical characteristics of the novel haloalkane dehalogenase DatA, isolated from the plant pathogen Agrobacterium tumefaciens C58 - Hasan_2011_Appl.Environ.Microbiol_77_1881 |
| Author(s) : Hasan K , Fortova A , Koudelakova T , Chaloupkova R , Ishitsuka M , Nagata Y , Damborsky J , Prokop Z |
| Ref : Applied Environmental Microbiology , 77 :1881 , 2011 |
| Abstract : |
| PubMedSearch : Hasan_2011_Appl.Environ.Microbiol_77_1881 |
| PubMedID: 21193677 |
| Title : Substrate specificity of haloalkane dehalogenases - Koudelakova_2011_Biochem.J_435_345 |
| Author(s) : Koudelakova T , Chovancova E , Brezovsky J , Monincova M , Fortova A , Jarkovsky J , Damborsky J |
| Ref : Biochemical Journal , 435 :345 , 2011 |
| Abstract : |
| PubMedSearch : Koudelakova_2011_Biochem.J_435_345 |
| PubMedID: 21294712 |
| Gene_locus related to this paper: agrtu-DHAA , brael-e2rv62 , braja-dhaa , myctu-linb , myctu-Rv1833c , rhoba-DHLA , rhoso-halo1 , sphpi-linb , xanau-halo1 |
| Title : Enantioselectivity of haloalkane dehalogenases and its modulation by surface loop engineering - |
| Author(s) : Prokop Z , Sato Y , Brezovsky J , Mozga T , Chaloupkova R , Koudelakova T , Jerabek P , Stepankova V , Natsume R , van Leeuwen JG , Janssen DB , Florian J , Nagata Y , Senda T , Damborsky J |
| Ref : Angew Chem Int Ed Engl , 49 :6111 , 2010 |
| PubMedID: 20645368 |
| Gene_locus related to this paper: braja-dhaa |
| Title : Atomic resolution studies of haloalkane dehalogenases DhaA04, DhaA14 and DhaA15 with engineered access tunnels - Stsiapanava_2010_Acta.Crystallogr.D.Biol.Crystallogr_66_962 |
| Author(s) : Stsiapanava A , Dohnalek J , Gavira JA , Kuty M , Koudelakova T , Damborsky J , Kuta Smatanova I |
| Ref : Acta Crystallographica D Biol Crystallogr , 66 :962 , 2010 |
| Abstract : |
| PubMedSearch : Stsiapanava_2010_Acta.Crystallogr.D.Biol.Crystallogr_66_962 |
| PubMedID: 20823547 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Development of an enzymatic fiber-optic biosensor for detection of halogenated hydrocarbons - Bidmanova_2010_Anal.Bioanal.Chem_398_1891 |
| Author(s) : Bidmanova S , Chaloupkova R , Damborsky J , Prokop Z |
| Ref : Anal Bioanal Chem , 398 :1891 , 2010 |
| Abstract : |
| PubMedSearch : Bidmanova_2010_Anal.Bioanal.Chem_398_1891 |
| PubMedID: 20721539 |
| Title : Editorial: Protein design and engineering for biocatalysis - |
| Author(s) : Damborsky J |
| Ref : Biotechnol J , 4 :439 , 2009 |
| PubMedID: 19370730 |
| Title : Computational tools for designing and engineering biocatalysts - Damborsky_2009_Curr.Opin.Chem.Biol_13_26 |
| Author(s) : Damborsky J , Brezovsky J |
| Ref : Curr Opin Chemical Biology , 13 :26 , 2009 |
| Abstract : |
| PubMedSearch : Damborsky_2009_Curr.Opin.Chem.Biol_13_26 |
| PubMedID: 19297237 |
| Title : Crystallization and preliminary X-ray analysis of a novel haloalkane dehalogenase DbeA from Bradyrhizobium elkani USDA94 - Prudnikova_2009_Acta.Crystallogr.Sect.F.Struct.Biol.Cryst.Commun_65_353 |
| Author(s) : Prudnikova T , Mozga T , Rezacova P , Chaloupkova R , Sato Y , Nagata Y , Brynda J , Kuty M , Damborsky J , Smatanova IK |
| Ref : Acta Crystallographica Sect F Struct Biol Cryst Commun , 65 :353 , 2009 |
| Abstract : |
| PubMedSearch : Prudnikova_2009_Acta.Crystallogr.Sect.F.Struct.Biol.Cryst.Commun_65_353 |
| PubMedID: 19342778 |
| Gene_locus related to this paper: brael-e2rv62 |
| Title : Biochemical characterization of haloalkane dehalogenases DrbA and DmbC, Representatives of a Novel Subfamily - Jesenska_2009_Appl.Environ.Microbiol_75_5157 |
| Author(s) : Jesenska A , Monincova M , Koudelakova T , Hasan K , Chaloupkova R , Prokop Z , Geerlof A , Damborsky J |
| Ref : Applied Environmental Microbiology , 75 :5157 , 2009 |
| Abstract : |
| PubMedSearch : Jesenska_2009_Appl.Environ.Microbiol_75_5157 |
| PubMedID: 19502442 |
| Gene_locus related to this paper: myctu-Rv1833c |
| Title : Pathways and mechanisms for product release in the engineered haloalkane dehalogenases explored using classical and random acceleration molecular dynamics simulations - Klvana_2009_J.Mol.Biol_392_1339 |
| Author(s) : Klvana M , Pavlova M , Koudelakova T , Chaloupkova R , Dvorak P , Prokop Z , Stsiapanava A , Kuty M , Kuta-Smatanova I , Dohnalek J , Kulhanek P , Wade RC , Damborsky J |
| Ref : Journal of Molecular Biology , 392 :1339 , 2009 |
| Abstract : |
| PubMedSearch : Klvana_2009_J.Mol.Biol_392_1339 |
| PubMedID: 19577578 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Nanosecond time-dependent Stokes shift at the tunnel mouth of haloalkane dehalogenases - Jesenska_2009_J.Am.Chem.Soc_131_494 |
| Author(s) : Jesenska A , Sykora J , Olzynska A , Brezovsky J , Zdrahal Z , Damborsky J , Hof M |
| Ref : Journal of the American Chemical Society , 131 :494 , 2009 |
| Abstract : |
| PubMedSearch : Jesenska_2009_J.Am.Chem.Soc_131_494 |
| PubMedID: 19113888 |
| Title : Redesigning dehalogenase access tunnels as a strategy for degrading an anthropogenic substrate - Pavlova_2009_Nat.Chem.Biol_5_727 |
| Author(s) : Pavlova M , Klvana M , Prokop Z , Chaloupkova R , Banas P , Otyepka M , Wade RC , Tsuda M , Nagata Y , Damborsky J |
| Ref : Nat Chemical Biology , 5 :727 , 2009 |
| Abstract : |
| PubMedSearch : Pavlova_2009_Nat.Chem.Biol_5_727 |
| PubMedID: 19701186 |
| Title : Second step of hydrolytic dehalogenation in haloalkane dehalogenase investigated by QM\/MM methods - Otyepka_2008_Proteins_70_707 |
| Author(s) : Otyepka M , Banas P , Magistrato A , Carloni P , Damborsky J |
| Ref : Proteins , 70 :707 , 2008 |
| Abstract : |
| PubMedSearch : Otyepka_2008_Proteins_70_707 |
| PubMedID: 17729274 |
| Title : Crystals of DhaA mutants from Rhodococcus rhodochrous NCIMB 13064 diffracted to ultrahigh resolution: crystallization and preliminary diffraction analysis - Stsiapanava_2008_Acta.Crystallogr.Sect.F.Struct.Biol.Cryst.Commun_64_137 |
| Author(s) : Stsiapanava A , Koudelakova T , Lapkouski M , Pavlova M , Damborsky J , Smatanova IK |
| Ref : Acta Crystallographica Sect F Struct Biol Cryst Commun , 64 :137 , 2008 |
| Abstract : |
| PubMedSearch : Stsiapanava_2008_Acta.Crystallogr.Sect.F.Struct.Biol.Cryst.Commun_64_137 |
| PubMedID: 18259069 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : The identification of catalytic pentad in the haloalkane dehalogenase DhmA from Mycobacterium avium N85: reaction mechanism and molecular evolution - Pavlova_2007_J.Struct.Biol_157_384 |
| Author(s) : Pavlova M , Klvana M , Jesenska A , Prokop Z , Konecna H , Sato T , Tsuda M , Nagata Y , Damborsky J |
| Ref : J Struct Biol , 157 :384 , 2007 |
| Abstract : |
| PubMedSearch : Pavlova_2007_J.Struct.Biol_157_384 |
| PubMedID: 17084094 |
| Title : Degradation of beta-hexachlorocyclohexane by haloalkane dehalogenase LinB from gamma-hexachlorocyclohexane-utilizing bacterium Sphingobium sp. MI1205 - Ito_2007_Arch.Microbiol_188_313 |
| Author(s) : Ito M , Prokop Z , Klvana M , Otsubo Y , Tsuda M , Damborsky J , Nagata Y |
| Ref : Arch Microbiol , 188 :313 , 2007 |
| Abstract : |
| PubMedSearch : Ito_2007_Arch.Microbiol_188_313 |
| PubMedID: 17516046 |
| Gene_locus related to this paper: sphpi-linb |
| Title : Weak activity of haloalkane dehalogenase LinB with 1,2,3-trichloropropane revealed by X-Ray crystallography and microcalorimetry - Monincova_2007_Appl.Environ.Microbiol_73_2005 |
| Author(s) : Monincova M , Prokop Z , Vevodova J , Nagata Y , Damborsky J |
| Ref : Applied Environmental Microbiology , 73 :2005 , 2007 |
| Abstract : |
| PubMedSearch : Monincova_2007_Appl.Environ.Microbiol_73_2005 |
| PubMedID: 17259360 |
| Gene_locus related to this paper: sphpi-linb |
| Title : Crystallization and preliminary crystallographic analysis of a haloalkane dehalogenase, DbjA, from Bradyrhizobium japonicum USDA110 - Sato_2007_Acta.Crystallogr.Sect.F.Struct.Biol.Cryst.Commun_63_294 |
| Author(s) : Sato Y , Natsume R , Tsuda M , Damborsky J , Nagata Y , Senda T |
| Ref : Acta Crystallographica Sect F Struct Biol Cryst Commun , 63 :294 , 2007 |
| Abstract : |
| PubMedSearch : Sato_2007_Acta.Crystallogr.Sect.F.Struct.Biol.Cryst.Commun_63_294 |
| PubMedID: 17401198 |
| Title : Phylogenetic analysis of haloalkane dehalogenases - Chovancova_2007_Proteins_67_305 |
| Author(s) : Chovancova E , Kosinski J , Bujnicki JM , Damborsky J |
| Ref : Proteins , 67 :305 , 2007 |
| Abstract : |
| PubMedSearch : Chovancova_2007_Proteins_67_305 |
| PubMedID: 17295320 |
| Title : Exploring the binding sites of the haloalkane dehalogenase DhlA from Xanthobacter autotrophicus GJ10 - Silberstein_2007_Biochemistry_46_9239 |
| Author(s) : Silberstein M , Damborsky J , Vajda S |
| Ref : Biochemistry , 46 :9239 , 2007 |
| Abstract : |
| PubMedSearch : Silberstein_2007_Biochemistry_46_9239 |
| PubMedID: 17645312 |
| Gene_locus related to this paper: xanau-halo1 |
| Title : Stepwise dissection and visualization of the catalytic mechanism of haloalkane dehalogenase LinB using molecular dynamics simulations and computer graphics - Negri_2007_J.Mol.Graph.Model_26_643 |
| Author(s) : Negri A , Marco E , Damborsky J , Gago F |
| Ref : J Mol Graph Model , 26 :643 , 2007 |
| Abstract : |
| PubMedSearch : Negri_2007_J.Mol.Graph.Model_26_643 |
| PubMedID: 17451982 |
| Title : CAVER: a new tool to explore routes from protein clefts, pockets and cavities - Petrek_2006_BMC.Bioinformatics_7_316 |
| Author(s) : Petrek M , Otyepka M , Banas P , Kosinova P , Koca J , Damborsky J |
| Ref : BMC Bioinformatics , 7 :316 , 2006 |
| Abstract : |
| PubMedSearch : Petrek_2006_BMC.Bioinformatics_7_316 |
| PubMedID: 16792811 |
| Title : Enzymes fight chemical weapons - |
| Author(s) : Prokop Z , Oplustil F , DeFrank J , Damborsky J |
| Ref : Biotechnol J , 1 :1370 , 2006 |
| PubMedID: 17136732 |
| Title : Expression of glycosylated haloalkane dehalogenase LinB in Pichia pastoris - Nakamura_2006_Protein.Expr.Purif_46_85 |
| Author(s) : Nakamura T , Zamocky M , Zdrahal Z , Chaloupkova R , Monincova M , Prokop Z , Nagata Y , Damborsky J |
| Ref : Protein Expr Purif , 46 :85 , 2006 |
| Abstract : |
| PubMedSearch : Nakamura_2006_Protein.Expr.Purif_46_85 |
| PubMedID: 16216524 |
| Title : Mechanism of enhanced conversion of 1,2,3-trichloropropane by mutant haloalkane dehalogenase revealed by molecular modeling - Banas_2006_J.Comput.Aided.Mol.Des_20_375 |
| Author(s) : Banas P , Otyepka M , Jerabek P , Petrek M , Damborsky J |
| Ref : J Comput Aided Mol Des , 20 :375 , 2006 |
| Abstract : |
| PubMedSearch : Banas_2006_J.Comput.Aided.Mol.Des_20_375 |
| PubMedID: 17016745 |
| Title : Quantitative analysis of substrate specificity of haloalkane dehalogenase LinB from Sphingomonas paucimobilis UT26 - Kmunicek_2005_Biochemistry_44_3390 |
| Author(s) : Kmunicek J , Hynkova K , Jedlicka T , Nagata Y , Negri A , Gago F , Wade RC , Damborsky J |
| Ref : Biochemistry , 44 :3390 , 2005 |
| Abstract : |
| PubMedSearch : Kmunicek_2005_Biochemistry_44_3390 |
| PubMedID: 15736949 |
| Gene_locus related to this paper: sphpi-linb |
| Title : Two rhizobial strains, Mesorhizobium loti MAFF303099 and Bradyrhizobium japonicum USDA110, encode haloalkane dehalogenases with novel structures and substrate specificities - Sato_2005_Appl.Environ.Microbiol_71_4372 |
| Author(s) : Sato Y , Monincova M , Chaloupkova R , Prokop Z , Ohtsubo Y , Minamisawa K , Tsuda M , Damborsky J , Nagata Y |
| Ref : Applied Environmental Microbiology , 71 :4372 , 2005 |
| Abstract : |
| PubMedSearch : Sato_2005_Appl.Environ.Microbiol_71_4372 |
| PubMedID: 16085827 |
| Title : Cloning, biochemical properties, and distribution of mycobacterial haloalkane dehalogenases - Jesenska_2005_Appl.Environ.Microbiol_71_6736 |
| Author(s) : Jesenska A , Pavlova M , Strouhal M , Chaloupkova R , Tesinska I , Monincova M , Prokop Z , Bartos M , Pavlik I , Rychlik I , Mobius P , Nagata Y , Damborsky J |
| Ref : Applied Environmental Microbiology , 71 :6736 , 2005 |
| Abstract : |
| PubMedSearch : Jesenska_2005_Appl.Environ.Microbiol_71_6736 |
| PubMedID: 16269704 |
| Gene_locus related to this paper: myctu-linb |
| Title : Degradation of beta-Hexachlorocyclohexane by Haloalkane Dehalogenase LinB from Sphingomonas paucimobilis UT26 - Nagata_2005_Appl.Environ.Microbiol_71_2183 |
| Author(s) : Nagata Y , Prokop Z , Sato Y , Jerabek P , Kumar A , Ohtsubo Y , Tsuda M , Damborsky J |
| Ref : Applied Environmental Microbiology , 71 :2183 , 2005 |
| Abstract : |
| PubMedSearch : Nagata_2005_Appl.Environ.Microbiol_71_2183 |
| PubMedID: 15812056 |
| Title : Crystal structure of haloalkane dehalogenase LinB from Sphingomonas paucimobilis UT26 at 0.95 A resolution: dynamics of catalytic residues - Oakley_2004_Biochemistry_43_870 |
| Author(s) : Oakley AJ , Klvana M , Otyepka M , Nagata Y , Wilce MC , Damborsky J |
| Ref : Biochemistry , 43 :870 , 2004 |
| Abstract : |
| PubMedSearch : Oakley_2004_Biochemistry_43_870 |
| PubMedID: 14744129 |
| Gene_locus related to this paper: sphpi-linb |
| Title : Catalytic mechanism of the maloalkane dehalogenase LinB from Sphingomonas paucimobilis UT26 - Prokop_2003_J.Biol.Chem_278_45094 |
| Author(s) : Prokop Z , Monincova M , Chaloupkova R , Klvana M , Nagata Y , Janssen DB , Damborsky J |
| Ref : Journal of Biological Chemistry , 278 :45094 , 2003 |
| Abstract : |
| PubMedSearch : Prokop_2003_J.Biol.Chem_278_45094 |
| PubMedID: 12952988 |
| Gene_locus related to this paper: sphpi-linb |
| Title : Haloalkane dehalogenase LinB from Sphingomonas paucimobilis UT26: X-ray crystallographic studies of dehalogenation of brominated substrates - Streltsov_2003_Biochemistry_42_10104 |
| Author(s) : Streltsov VA , Prokop Z , Damborsky J , Nagata Y , Oakley A , Wilce MC |
| Ref : Biochemistry , 42 :10104 , 2003 |
| Abstract : |
| PubMedSearch : Streltsov_2003_Biochemistry_42_10104 |
| PubMedID: 12939138 |
| Gene_locus related to this paper: sphpi-linb |
| Title : Modification of activity and specificity of haloalkane dehalogenase from Sphingomonas paucimobilis UT26 by engineering of its entrance tunnel - Chaloupkova_2003_J.Biol.Chem_278_52622 |
| Author(s) : Chaloupkova R , Sykorova J , Prokop Z , Jesenska A , Monincova M , Pavlova M , Tsuda M , Nagata Y , Damborsky J |
| Ref : Journal of Biological Chemistry , 278 :52622 , 2003 |
| Abstract : |
| PubMedSearch : Chaloupkova_2003_J.Biol.Chem_278_52622 |
| PubMedID: 14525993 |
| Title : Comparative binding energy analysis of haloalkane dehalogenase substrates: modelling of enzyme-substrate complexes by molecular docking and quantum mechanical calculations - Kmunicek_2003_J.Comput.Aided.Mol.Des_17_299 |
| Author(s) : Kmunicek J , Bohac M , Luengo S , Gago F , Wade RC , Damborsky J |
| Ref : J Comput Aided Mol Des , 17 :299 , 2003 |
| Abstract : |
| PubMedSearch : Kmunicek_2003_J.Comput.Aided.Mol.Des_17_299 |
| PubMedID: 14635723 |
| Title : Reconstruction of mycobacterial dehalogenase Rv2579 by cumulative mutagenesis of haloalkane dehalogenase LinB - Nagata_2003_Appl.Environ.Microbiol_69_2349 |
| Author(s) : Nagata Y , Prokop Z , Marvanova S , Sykorova J , Monincova M , Tsuda M , Damborsky J |
| Ref : Applied Environmental Microbiology , 69 :2349 , 2003 |
| Abstract : |
| PubMedSearch : Nagata_2003_Appl.Environ.Microbiol_69_2349 |
| PubMedID: 12676719 |
| Title : Functionally relevant motions of haloalkane dehalogenases occur in the specificity-modulating cap domains - Otyepka_2002_Protein.Sci_11_1206 |
| Author(s) : Otyepka M , Damborsky J |
| Ref : Protein Science , 11 :1206 , 2002 |
| Abstract : |
| PubMedSearch : Otyepka_2002_Protein.Sci_11_1206 |
| PubMedID: 11967377 |
| Title : Biodegradation of 1,2,3-trichloropropane through directed evolution and heterologous expression of a haloalkane dehalogenase gene - Bosma_2002_Appl.Environ.Microbiol_68_3582 |
| Author(s) : Bosma T , Damborsky J , Stucki G , Janssen DB |
| Ref : Applied Environmental Microbiology , 68 :3582 , 2002 |
| Abstract : |
| PubMedSearch : Bosma_2002_Appl.Environ.Microbiol_68_3582 |
| PubMedID: 12089046 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Halide-stabilizing residues of haloalkane dehalogenases studied by quantum mechanic calculations and site-directed mutagenesis - Bohac_2002_Biochemistry_41_14272 |
| Author(s) : Bohac M , Nagata Y , Prokop Z , Prokop M , Monincova M , Tsuda M , Koca J , Damborsky J |
| Ref : Biochemistry , 41 :14272 , 2002 |
| Abstract : |
| PubMedSearch : Bohac_2002_Biochemistry_41_14272 |
| PubMedID: 12450392 |
| Gene_locus related to this paper: sphpi-linb |
| Title : Exploring the structure and activity of haloalkane dehalogenase from Sphingomonas paucimobilis UT26: evidence for product- and water-mediated inhibition - Oakley_2002_Biochemistry_41_4847 |
| Author(s) : Oakley AJ , Prokop Z , Bohac M , Kmunicek J , Jedlicka T , Monincova M , Kuta-Smatanova I , Nagata Y , Damborsky J , Wilce MC |
| Ref : Biochemistry , 41 :4847 , 2002 |
| Abstract : |
| PubMedSearch : Oakley_2002_Biochemistry_41_4847 |
| PubMedID: 11939779 |
| Gene_locus related to this paper: sphpi-linb |
| Title : Cloning and expression of the haloalkane dehalogenase gene dhmA from Mycobacterium avium N85 and preliminary characterization of DhmA - Jesenska_2002_Appl.Environ.Microbiol_68_3724 |
| Author(s) : Jesenska A , Bartos M , Czernekova V , Rychlik I , Pavlik I , Damborsky J |
| Ref : Applied Environmental Microbiology , 68 :3724 , 2002 |
| Abstract : |
| PubMedSearch : Jesenska_2002_Appl.Environ.Microbiol_68_3724 |
| PubMedID: 12147465 |
| Gene_locus related to this paper: mycav-DHMA |
| Title : Structure-specificity relationships for haloalkane dehalogenases - Damborsky_2001_Environ.Toxicol.Chem_20_2681 |
| Author(s) : Damborsky J , Rorije E , Jesenska A , Nagata Y , Klopman G , Peijnenburg WJ |
| Ref : Environ Toxicol Chem , 20 :2681 , 2001 |
| Abstract : |
| PubMedSearch : Damborsky_2001_Environ.Toxicol.Chem_20_2681 |
| PubMedID: 11764149 |
| Title : Biochemical characterization of broad-specificity enzymes using multivariate experimental design and a colorimetric microplate assay: characterization of the haloalkane dehalogenase mutants - Marvanova_2001_J.Microbiol.Methods_44_149 |
| Author(s) : Marvanova S , Nagata Y , Wimmerova M , Sykorova J , Hynkova K , Damborsky J |
| Ref : J Microbiol Methods , 44 :149 , 2001 |
| Abstract : |
| PubMedSearch : Marvanova_2001_J.Microbiol.Methods_44_149 |
| PubMedID: 11165344 |
| Title : Comparative binding energy analysis of the substrate specificity of haloalkane dehalogenase from Xanthobacter autotrophicus GJ10 - Kmunicek_2001_Biochemistry_40_8905 |
| Author(s) : Kmunicek J , Luengo S , Gago F , Ortiz AR , Wade RC , Damborsky J |
| Ref : Biochemistry , 40 :8905 , 2001 |
| Abstract : |
| PubMedSearch : Kmunicek_2001_Biochemistry_40_8905 |
| PubMedID: 11467952 |
| Gene_locus related to this paper: xanau-halo1 |
| Title : Effect of the carbon source on assessment of degrading bacteria with the spread-plating technique during in situ bioremediation - Damborsky_2000_Folia.Microbiol.(Praha)_45_35 |
| Author(s) : Damborsky J , Damborska M , Stipek S , Jesenska A , Trantirek L , Sklenar V |
| Ref : Folia Microbiol (Praha) , 45 :35 , 2000 |
| Abstract : |
| PubMedSearch : Damborsky_2000_Folia.Microbiol.(Praha)_45_35 |
| PubMedID: 11200669 |
| Title : Crystal structure of the haloalkane dehalogenase from Sphingomonas paucimobilis UT26 - Marek_2000_Biochemistry_39_14082 |
| Author(s) : Marek J , Vevodova J , Smatanova IK , Nagata Y , Svensson LA , Newman J , Takagi M , Damborsky J |
| Ref : Biochemistry , 39 :14082 , 2000 |
| Abstract : |
| PubMedSearch : Marek_2000_Biochemistry_39_14082 |
| PubMedID: 11087355 |
| Gene_locus related to this paper: sphpi-linb |
| Title : Dehalogenation of haloalkanes by Mycobacterium tuberculosis H37Rv and other mycobacteria - Jesenska_2000_Appl.Environ.Microbiol_66_219 |
| Author(s) : Jesenska A , Sedlacek I , Damborsky J |
| Ref : Applied Environmental Microbiology , 66 :219 , 2000 |
| Abstract : |
| PubMedSearch : Jesenska_2000_Appl.Environ.Microbiol_66_219 |
| PubMedID: 10618227 |
| Title : Determination of haloalkane dehalogenase activity by capillary zone electrophoresis - Glatz_2000_J.Chromatogr.A_895_219 |
| Author(s) : Glatz Z , Marini MV , Wimmerova M , Damborsky J , Nagata Y |
| Ref : Journal of Chromatography A , 895 :219 , 2000 |
| Abstract : |
| PubMedSearch : Glatz_2000_J.Chromatogr.A_895_219 |
| PubMedID: 11105865 |
| Title : Identification of the catalytic triad in the haloalkane dehalogenase from Sphingomonas paucimobilis UT26 - Hynkova_1999_FEBS.Lett_446_177 |
| Author(s) : Hynkova K , Nagata Y , Takagi M , Damborsky J |
| Ref : FEBS Letters , 446 :177 , 1999 |
| Abstract : |
| PubMedSearch : Hynkova_1999_FEBS.Lett_446_177 |
| PubMedID: 10100638 |
| Gene_locus related to this paper: sphpi-linb |
| Title : Analysis of the reaction mechanism and substrate specificity of haloalkane dehalogenases by sequential and structural comparisons - Damborsky_1999_Protein.Eng_12_989 |
| Author(s) : Damborsky J , Koca J |
| Ref : Protein Engineering , 12 :989 , 1999 |
| Abstract : |
| PubMedSearch : Damborsky_1999_Protein.Eng_12_989 |
| PubMedID: 10585505 |
| Title : Construction and characterization of histidine-tagged haloalkane dehalogenase (LinB) of a new substrate class from a gamma-hexachlorocyclohexane-degrading bacterium, Sphingomonas paucimobilis UT26 - Nagata_1999_Protein.Expr.Purif_17_299 |
| Author(s) : Nagata Y , Hynkova K , Damborsky J , Takagi M |
| Ref : Protein Expr Purif , 17 :299 , 1999 |
| Abstract : |
| PubMedSearch : Nagata_1999_Protein.Expr.Purif_17_299 |
| PubMedID: 10545279 |
| Title : Computational site-directed mutagenesis of haloalkane dehalogenase in position 172 - Damborsky_1998_Protein.Eng_11_901 |
| Author(s) : Damborsky J , Bohac M , Prokop M , Kuty M , Koca J |
| Ref : Protein Engineering , 11 :901 , 1998 |
| Abstract : |
| PubMedSearch : Damborsky_1998_Protein.Eng_11_901 |
| PubMedID: 9862209 |
| Title : Purification and characterization of a haloalkane dehalogenase of a new substrate class from a gamma-hexachlorocyclohexane-degrading bacterium, Sphingomonas paucimobilis UT26 - Nagata_1997_Appl.Environ.Microbiol_63_3707 |
| Author(s) : Nagata Y , Miyauchi K , Damborsky J , Manova K , Ansorgova A , Takagi M |
| Ref : Applied Environmental Microbiology , 63 :3707 , 1997 |
| Abstract : |
| PubMedSearch : Nagata_1997_Appl.Environ.Microbiol_63_3707 |
| PubMedID: 9293022 |
| Gene_locus related to this paper: sphpi-linb |
| Title : Repositioning the catalytic triad aspartic acid of haloalkane dehalogenase: effects on stability, kinetics, and structure - Krooshof_1997_Biochemistry_36_9571 |
| Author(s) : Krooshof GH , Kwant EM , Damborsky J , Koca J , Janssen DB |
| Ref : Biochemistry , 36 :9571 , 1997 |
| Abstract : |
| PubMedSearch : Krooshof_1997_Biochemistry_36_9571 |
| PubMedID: 9236003 |
| Title : Some biochemical properties and the classification of a range of bacterial haloalkane dehalogenases - Damborsky_1997_Biotechnol.Appl.Biochem_26_19 |
| Author(s) : Damborsky J , Nyandoroh MG , Nemec M , Holoubek I , Bull AT , Hardman DJ |
| Ref : Biotechnol Appl Biochem , 26 :19 , 1997 |
| Abstract : |
| PubMedSearch : Damborsky_1997_Biotechnol.Appl.Biochem_26_19 |
| PubMedID: 9261999 |
| Title : A mechanistic approach to deriving quantitative structure-activity relationship models for microbial degradation of organic compounds - Damborsky_1996_SAR.QSAR.Environ.Res_5_27 |
| Author(s) : Damborsky J |
| Ref : SAR QSAR Environ Research , 5 :27 , 1996 |
| Abstract : |
| PubMedSearch : Damborsky_1996_SAR.QSAR.Environ.Res_5_27 |
| PubMedID: 8640583 |