Haloalkane_dehalogenase-HLD2
Relationship
Comment
Haloalkane dehalogenases (HLDs) are enzymes that catalyze the cleavage of carbon halogen bonds by a hydrolytic mechanism. The catalytic triad consists of the key nucleophile (Asp) the general base (His) and a catalytic acid (Asp or Glu). HLD where subdivided in three subfamily (Chovancova et al.) according to their substrate specificity and position of active site residues. Class one HLD1 (HLD-I) has catalytic triad Asp-His-Asp and halide-strabilizing residues Trp-Trp. Class two HLDII (HLD-II) has catalytic triad Asp-His-Glu and halide-stabilizing residues Asn-Trp. Class three HLDIII (HLD-III) has catalytic triad Asp-His-Asp and halide-strabilizing residues Asn-Trp. Although the reaction performed is different the Renilla reniformis luciferase belongs to this family. In ESTHER as in HAMAP database class I and III are merged as they are close. Luciferase from Renilla reniformis (RLuc) catalyzes the degradation of coelenterazine in the presence of molecular oxygen, resulting in the product coelenteramide, carbon dioxide, and the desired photon of light (EC 1.13.12.5). This enzyme belongs to the Haloalkane dehalogenase family II with a different catalytic function (EC 3.8.1.5) (this luciferase is different from fireflies luciferases classified as Luciferin 4-monooxygenase; ATP-dependent AMP-binding enzyme family). Reconstruction of an ancestral enzyme shows it has both hydrolase and monooxygenase activities ( Chaloupkova et al.)Database
Interpro : IPR023594 Haloalkane dehalogenase, subfamily 2
PIRSF : No PIRSF
Pdoc : No Pdoc
Pfam : PF00561 Abhydrolase_1
Prints : No Print
EC Number : 3.8.1.5
References (26)
| 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 : Chaloupkova_2019_ACS.Catal_9_48103 |
| ESTHER : Chaloupkova_2019_ACS.Catal_9_48103 |
| PubMedSearch : Chaloupkova_2019_ACS.Catal_9_48103 |
| PubMedID: |
| Gene_locus related to this paper: 9zzzz-AncHLDRLuc2 , 9zzzz-AncHLDRLuc , renre-luc |
| 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 : Buryska_2018_Appl.Environ.Microbiol_84_ |
| ESTHER : Buryska_2018_Appl.Environ.Microbiol_84_ |
| PubMedSearch : Buryska_2018_Appl.Environ.Microbiol_84_ |
| PubMedID: 29101190 |
| Gene_locus related to this paper: 9cyan-q6dnd9 |
| Title : A puzzling homology: a brittle star using a putative cnidarian-type luciferase for bioluminescence - Delroisse_2017_Open.Biol_7_ |
| Author(s) : Delroisse J , Ullrich-Luter E , Blaue S , Ortega-Martinez O , Eeckhaut I , Flammang P , Mallefet J |
| Ref : Open Biol , 7 : , 2017 |
| Abstract : Delroisse_2017_Open.Biol_7_ |
| ESTHER : Delroisse_2017_Open.Biol_7_ |
| PubMedSearch : Delroisse_2017_Open.Biol_7_ |
| PubMedID: 28381628 |
| 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 : Brezovsky_2016_ACS.Catal_6_7597 |
| ESTHER : Brezovsky_2016_ACS.Catal_6_7597 |
| PubMedSearch : Brezovsky_2016_ACS.Catal_6_7597 |
| PubMedID: |
| Gene_locus related to this paper: sphpi-linb |
| 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 : Liskova_2015_ChemCatChem_7_648 |
| ESTHER : Liskova_2015_ChemCatChem_7_648 |
| PubMedSearch : Liskova_2015_ChemCatChem_7_648 |
| PubMedID: |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Biochemical and structural characterisation of a haloalkane dehalogenase from a marine Rhodobacteraceae - Novak_2014_FEBS.Lett_588_1616 |
| Author(s) : Novak HR , Sayer C , Isupov MN , Gotz D , Spragg AM , Littlechild JA |
| Ref : FEBS Letters , 588 :1616 , 2014 |
| Abstract : Novak_2014_FEBS.Lett_588_1616 |
| ESTHER : Novak_2014_FEBS.Lett_588_1616 |
| PubMedSearch : Novak_2014_FEBS.Lett_588_1616 |
| PubMedID: 24613925 |
| Gene_locus related to this paper: 9rhob-KF032932 |
| 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 : Sykora_2014_Nat.Chem.Biol_10_428 |
| ESTHER : Sykora_2014_Nat.Chem.Biol_10_428 |
| PubMedSearch : Sykora_2014_Nat.Chem.Biol_10_428 |
| PubMedID: 24727901 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Crystal structure of the novel haloalkane dehalogenase DatA from Agrobacterium tumefaciens C58 reveals a special halide-stabilizing pair and enantioselectivity mechanism - Guan_2014_Appl.Microbiol.Biotechnol_98_8573 |
| Author(s) : Guan L , Yabuki H , Okai M , Ohtsuka J , Tanokura M |
| Ref : Applied Microbiology & Biotechnology , 98 :8573 , 2014 |
| Abstract : Guan_2014_Appl.Microbiol.Biotechnol_98_8573 |
| ESTHER : Guan_2014_Appl.Microbiol.Biotechnol_98_8573 |
| PubMedSearch : Guan_2014_Appl.Microbiol.Biotechnol_98_8573 |
| PubMedID: 24770384 |
| Gene_locus related to this paper: agrtu-DHAA |
| 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 : Koudelakova_2013_Angew.Chem.Int.Ed.Engl_52_1959 |
| ESTHER : Koudelakova_2013_Angew.Chem.Int.Ed.Engl_52_1959 |
| 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 : Stepankova_2013_Chembiochem_14_890 |
| ESTHER : Stepankova_2013_Chembiochem_14_890 |
| PubMedSearch : Stepankova_2013_Chembiochem_14_890 |
| PubMedID: 23564727 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : Crystal Structure and Site-Directed Mutagenesis Analyses of Haloalkane Dehalogenase LinB from Sphingobium sp. Strain MI1205 - Okai_2013_J.Bacteriol_195_2642 |
| Author(s) : Okai M , Ohtsuka J , Imai LF , Mase T , Moriuchi R , Tsuda M , Nagata K , Nagata Y , Tanokura M |
| Ref : Journal of Bacteriology , 195 :2642 , 2013 |
| Abstract : Okai_2013_J.Bacteriol_195_2642 |
| ESTHER : Okai_2013_J.Bacteriol_195_2642 |
| PubMedSearch : Okai_2013_J.Bacteriol_195_2642 |
| PubMedID: 23564170 |
| Gene_locus related to this paper: sphpi-q6vqx3 |
| Title : Structure and activity of DmmA, a marine haloalkane dehalogenase - Gehret_2012_Protein.Sci_21_239 |
| Author(s) : Gehret JJ , Gu L , Geders TW , Brown WC , Gerwick L , Gerwick WH , Sherman DH , Smith JL |
| Ref : Protein Science , 21 :239 , 2012 |
| Abstract : Gehret_2012_Protein.Sci_21_239 |
| ESTHER : Gehret_2012_Protein.Sci_21_239 |
| PubMedSearch : Gehret_2012_Protein.Sci_21_239 |
| PubMedID: 22124946 |
| Gene_locus related to this paper: 9cyan-q6dnd9 |
| 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 : Koudelakova_2011_Biochem.J_435_345 |
| ESTHER : Koudelakova_2011_Biochem.J_435_345 |
| 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 : 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 : Klvana_2009_J.Mol.Biol_392_1339 |
| ESTHER : Klvana_2009_J.Mol.Biol_392_1339 |
| PubMedSearch : Klvana_2009_J.Mol.Biol_392_1339 |
| PubMedID: 19577578 |
| Gene_locus related to this paper: rhoso-halo1 |
| Title : X-ray crystal structure of Mycobacterium tuberculosis haloalkane dehalogenase Rv2579 - Mazumdar_2008_Biochim.Biophys.Acta_1784_351 |
| Author(s) : Mazumdar PA , Hulecki JC , Cherney MM , Garen CR , James MN |
| Ref : Biochimica & Biophysica Acta , 1784 :351 , 2008 |
| Abstract : Mazumdar_2008_Biochim.Biophys.Acta_1784_351 |
| ESTHER : Mazumdar_2008_Biochim.Biophys.Acta_1784_351 |
| PubMedSearch : Mazumdar_2008_Biochim.Biophys.Acta_1784_351 |
| PubMedID: 18062934 |
| Gene_locus related to this paper: myctu-linb |
| 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 : Chovancova_2007_Proteins_67_305 |
| ESTHER : Chovancova_2007_Proteins_67_305 |
| PubMedSearch : Chovancova_2007_Proteins_67_305 |
| PubMedID: 17295320 |
| Title : Crystal structures of the luciferase and green fluorescent protein from Renilla reniformis - Loening_2007_J.Mol.Biol_374_1017 |
| Author(s) : Loening AM , Fenn TD , Gambhir SS |
| Ref : Journal of Molecular Biology , 374 :1017 , 2007 |
| Abstract : Loening_2007_J.Mol.Biol_374_1017 |
| ESTHER : Loening_2007_J.Mol.Biol_374_1017 |
| PubMedSearch : Loening_2007_J.Mol.Biol_374_1017 |
| PubMedID: 17980388 |
| Gene_locus related to this paper: renre-luc |
| 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 : Monincova_2007_Appl.Environ.Microbiol_73_2005 |
| ESTHER : Monincova_2007_Appl.Environ.Microbiol_73_2005 |
| PubMedSearch : Monincova_2007_Appl.Environ.Microbiol_73_2005 |
| PubMedID: 17259360 |
| Gene_locus related to this paper: sphpi-linb |
| 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 : Oakley_2004_Biochemistry_43_870 |
| ESTHER : Oakley_2004_Biochemistry_43_870 |
| PubMedSearch : Oakley_2004_Biochemistry_43_870 |
| PubMedID: 14744129 |
| Gene_locus related to this paper: sphpi-linb |
| Title : Evolving haloalkane dehalogenases - Janssen_2004_Curr.Opin.Chem.Biol_8_150 |
| Author(s) : Janssen DB |
| Ref : Curr Opin Chemical Biology , 8 :150 , 2004 |
| Abstract : Janssen_2004_Curr.Opin.Chem.Biol_8_150 |
| ESTHER : Janssen_2004_Curr.Opin.Chem.Biol_8_150 |
| PubMedSearch : Janssen_2004_Curr.Opin.Chem.Biol_8_150 |
| PubMedID: 15062775 |
| 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 : Streltsov_2003_Biochemistry_42_10104 |
| ESTHER : Streltsov_2003_Biochemistry_42_10104 |
| PubMedSearch : Streltsov_2003_Biochemistry_42_10104 |
| PubMedID: 12939138 |
| 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 : Oakley_2002_Biochemistry_41_4847 |
| ESTHER : Oakley_2002_Biochemistry_41_4847 |
| PubMedSearch : Oakley_2002_Biochemistry_41_4847 |
| PubMedID: 11939779 |
| Gene_locus related to this paper: sphpi-linb |
| 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 : Marek_2000_Biochemistry_39_14082 |
| ESTHER : Marek_2000_Biochemistry_39_14082 |
| PubMedSearch : Marek_2000_Biochemistry_39_14082 |
| PubMedID: 11087355 |
| Gene_locus related to this paper: sphpi-linb |
| Title : Haloalkane dehalogenases: structure of a Rhodococcus enzyme - Newman_1999_Biochemistry_38_16105 |
| Author(s) : Newman J , Peat TS , Richard R , Kan L , Swanson PE , Affholter JA , Holmes IH , Schindler JF , Unkefer CJ , Terwilliger TC |
| Ref : Biochemistry , 38 :16105 , 1999 |
| Abstract : Newman_1999_Biochemistry_38_16105 |
| ESTHER : Newman_1999_Biochemistry_38_16105 |
| PubMedSearch : Newman_1999_Biochemistry_38_16105 |
| PubMedID: 10587433 |
| Gene_locus related to this paper: rhoso-halo1 |
| 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 : Krooshof_1997_Biochemistry_36_9571 |
| ESTHER : Krooshof_1997_Biochemistry_36_9571 |
| PubMedSearch : Krooshof_1997_Biochemistry_36_9571 |
| PubMedID: 9236003 |
Structures (131)
Genes Proteins in Haloalkane_dehalogenase-HLD2 family (72)
No fragment of genes
Structures in Haloalkane_dehalogenase-HLD2 family (131)Substrates in Haloalkane_dehalogenase-HLD2 family (35)
Inhibitors in Haloalkane_dehalogenase-HLD2 family (30)