sphpi-linb

Sphingomonas paucimobilis (Pseudomonas paucimobilis); Sphingomonas sp., Sphingobium (japonicum ummariense indicum), Pseudomonas aeruginosa, LinB

Comment

Other strains: Sphingomonas paucimobilis (Pseudomonas paucimobilis) Sphingobium japonicum (strain NBRC 101211 \/ UT26S)\; Pseudomonas aeruginosa, Sphingomonas sp. (MM-1\; SS04-3\; HZ-1\; P21\; P8\; P1\; P12\; BHC-A\; P7\; NM05) Sphingobium sp. (NM05\; MI1205\; SS04-4\; SS04-1\; SS04-5\; HDIP04)\; Plasmid pLB1 1,4-TCDN\; Sphingobium japonicum\; Sphingobium ummariense RL-3, Sphingobium indicum B90A, uncultured bacterium, Xanthomonas sp. ICH12 (P51698 LINB_SPHPI obsolete entry)

Relationship

Family : Haloalkane_dehalogenase-HLD2

Block : X

Position in NCBI Life Tree : Sphingomonas paucimobilis

(Below N is a link to NCBI taxonomic web page and E link to ESTHER at designed phylum.)

> cellular organisms N E > Bacteria N E > Proteobacteria N E > Alphaproteobacteria N E > Sphingomonadales N E > Sphingomonadaceae N E > Sphingomonas N E > Sphingomonas paucimobilis N E

Molecular evidence

No mutation

1CV2 - Hydrolytic haloalkane dehalogenase Linb from Sphingomonas paucimobilis UT26 at 1.6 A resolution 1D07 - Hydrolytic haloalkane dehalogenase Linb from Sphingomonas paucimobilis Ut26 With 1,3-Propanediol, a product of debromidation of dibrompropane, at 2.0A Resolution 7NFZ - Crystal structure of haloalkane dehalogenase LinB57 mutant (H272F) from Sphingobium japonicum UT26 6S06 - Crystal structure of haloalkane dehalogenase LinB D147C+L177C mutant (LinB73) from Sphingobium japonicum UT26 4WDQ - Crystal structure of haloalkane dehalogenase LinB32 mutant (L177W) from Sphingobium japonicum UT26 4WDR - Crystal structure of haloalkane dehalogenase LinB 140A+143L+177W+211L mutant (LinB86) from Sphingobium japonicum UT26 5LKA - Crystal structure of haloalkane dehalogenase LinB 140A+143L+177W+211L mutant (LinB86) from Sphingobium japonicum UT26 at 1.3 A resolution 1G4H - Hydrolytic Haloalkane Dehalogenase Linb from Sphingomonas Paucimobilis complexed with Butan-1-Ol 1G5F - Hydrolytic Haloalkane Dehalogenase Linb from Sphingomonas Paucimobilis Complexed With 1,2-Dichloroethane 1G42 - Hydrolytic Haloalkane Dehalogenase Linb from Sphingomonas Paucimobilis Complexed With 1,2-Dichloropropane 1IZ7 - Re-Refinement Of The Structure Of Hydrolytic Haloalkane Dehalogenase Linb From Sphingomonas Paucimobilis Ut26 At 1.6 A Resolution 1IZ8 - Re-Refinement Of The Structure Of Hydrolytic Haloalkane Dehalogenase Linb From Sphingomonas Paucimobilis Ut26 With 1,3-Propanediol, A Product Of Debromidation Of Dibrompropane, At 2.0a Resolution 1K5P - Hydrolytic Haloalkane Dehalogenase Linb from Sphingomonas Paucimobilis UT26 at 1.8A resolution 1K6E - Hydrolytic Haloalkane Dehalogenase Linb from Sphingomonas Paucimobilis UT26 at 1.8A resolution with 1,2-propanediol (product of dehalogenation of 1,2-dibromopropane) 1K63 - Hydrolytic Haloalkane Dehalogenase Linb from Sphingomonas Paucimobilis UT26 at 1.8A resolution with 2-bromo-2-propene-1-ol 1MJ5 - Hydrolytic Haloalkane Dehalogenase Linb from Sphingomonas Paucimobilis UT26 at 1.8A resolution 2BFN - crystal structure of the complex of the haloalkane dehalogenase LinB with the product of dehalogenation reaction 1,2-dichloropropane

No kinetic

No disease

No inhibitor

Sequence

Peptide

MSLGAKPFGE KKFIEIKGRR MAYIDEGTGD PILFQHGNPT SSYLWRNIMP HCAGLGRLIA CDLIGMGDSD KLDPSGPERY AYAEHRDYLD ALWEALDLGD RVVLVVHDWG SALGFDWARR HRERVQGIAY MEAIAMPIEW ADFPEQDRDL FQAFRSQAGE ELVLQDNVFV EQVLPGLILR PLSEAEMAAY REPFLAAGEA RRPTLSWPRQ IPIAGTPADV VAIARDYAGW LSESPIPKLF INAEPGALTT GRMRDFCRTW PNQTEITVAG AHFIQEDSPD EIGAAIAAFV RRLRPA

References (35)

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
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
PubMedID: 34458806
Gene_locus related to this paper: sphpi-linb

Title : Transformation of short-chain chlorinated paraffins and olefins with the bacterial dehalogenase LinB from Sphingobium Indicum - Kinetic models for the homologue-specific conversion of reactive and persistent material - Knobloch_2021_Chemosphere_283_131199
Author(s) : Knobloch MC , Schinkel L , Kohler HE , Mathis F , Kern S , Bleiner D , Heeb NV
Ref : Chemosphere , 283 :131199 , 2021
PubMedID: 34153917
Gene_locus related to this paper: sphpi-linb

Title : Protocol for in-vitro purification and refolding of hexachlorocyclohexane degrading enzyme haloalkane dehalogenase LinB from inclusion bodies - Kaur_2021_Enzyme.Microb.Technol_146_109760
Author(s) : Kaur J , Singh A , Panda AK , Lal R
Ref : Enzyme Microb Technol , 146 :109760 , 2021
PubMedID: 33812559
Gene_locus related to this paper: sphpi-linb

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
PubMedID:
Gene_locus related to this paper: sphpi-linb

Title : Draft Genome Sequence of Sphingobium sp. Strain HDIPO4, an Avid Degrader of Hexachlorocyclohexane - Mukherjee_2013_Genome.Announc_1_e00749
Author(s) : Mukherjee U , Kumar R , Mahato NK , Khurana JP , Lal R
Ref : Genome Announc , 1 : , 2013
PubMedID: 24051321
Gene_locus related to this paper: sphju-d4z7y1 , sphju-d4z363 , sphpi-linb

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
PubMedID: 23519805
Gene_locus related to this paper: sphpi-linb

Title : Draft Genome Sequence of Sphingobium ummariense Strain RL-3, a Hexachlorocyclohexane-Degrading Bacterium - Kohli_2013_Genome.Announc_1_e00956
Author(s) : Kohli P , Dua A , Sangwan N , Oldach P , Khurana JP , Lal R
Ref : Genome Announc , 1 : , 2013
PubMedID: 24233594
Gene_locus related to this paper: sphpi-linb , 9sphn-t0kby4 , 9sphn-t0kfu7 , sphpi-a0a197bwy5 , 9sphn-t0jaw2

Title : Genome sequence of Sphingobium indicum B90A, a hexachlorocyclohexane-degrading bacterium - Anand_2012_J.Bacteriol_194_4471
Author(s) : Anand S , Sangwan N , Lata P , Kaur J , Dua A , Singh AK , Verma M , Khurana JP , Khurana P , Mathur S , Lal R
Ref : Journal of Bacteriology , 194 :4471 , 2012
PubMedID: 22843598
Gene_locus related to this paper: sphju-d4z363 , sphpi-linb

Title : The lin genes for gamma-hexachlorocyclohexane degradation in Sphingomonas sp. MM-1 proved to be dispersed across multiple plasmids - Tabata_2011_Biosci.Biotechnol.Biochem_75_466
Author(s) : Tabata M , Endo R , Ito M , Ohtsubo Y , Kumar A , Tsuda M , Nagata Y
Ref : Biosci Biotechnol Biochem , 75 :466 , 2011
PubMedID: 21389627
Gene_locus related to this paper: sphpi-linb

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
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 : Complete genome sequence of the representative gamma-hexachlorocyclohexane-degrading bacterium Sphingobium japonicum UT26 - Nagata_2010_J.Bacteriol_192_5852
Author(s) : Nagata Y , Ohtsubo Y , Endo R , Ichikawa N , Ankai A , Oguchi A , Fukui S , Fujita N , Tsuda M
Ref : Journal of Bacteriology , 192 :5852 , 2010
PubMedID: 20817768
Gene_locus related to this paper: psepa-q6vpf3 , sphju-d4z1p3 , sphju-d4z3u6 , sphpi-linb , sphju-d4yyy8

Title : Genetic diversity of gamma-hexachlorocyclohexane-degrading sphingomonads isolated from a single experimental field - Yamamoto_2009_Lett.Appl.Microbiol_49_472
Author(s) : Yamamoto S , Otsuka S , Murakami Y , Nishiyama M , Senoo K
Ref : Lett Appl Microbiol , 49 :472 , 2009
PubMedID: 19674290
Gene_locus related to this paper: sphpi-linb

Title : Isolation of hexachlorocyclohexane-degrading Sphingomonas sp. by dehalogenase assay and characterization of genes involved in gamma-HCH degradation - Manickam_2008_J.Appl.Microbiol_104_952
Author(s) : Manickam N , Reddy MK , Saini HS , Shanker R
Ref : J Appl Microbiol , 104 :952 , 2008
PubMedID: 18042212
Gene_locus related to this paper: sphpi-linb

Title : Insertion sequence-based cassette PCR: cultivation-independent isolation of gamma-hexachlorocyclohexane-degrading genes from soil DNA - Fuchu_2008_Appl.Microbiol.Biotechnol_79_627
Author(s) : Fuchu G , Ohtsubo Y , Ito M , Miyazaki R , Ono A , Nagata Y , Tsuda M
Ref : Applied Microbiology & Biotechnology , 79 :627 , 2008
PubMedID: 18425509
Gene_locus related to this paper: psepa-q6vpf3 , sphpi-linb

Title : Selective loss of lin genes from hexachlorocyclohexane-degrading Pseudomonas aeruginosa ITRC-5 under different growth conditions - Singh_2007_Appl.Microbiol.Biotechnol_76_895
Author(s) : Singh AK , Chaudhary P , Macwan AS , Diwedi UN , Kumar A
Ref : Applied Microbiology & Biotechnology , 76 :895 , 2007
PubMedID: 17602219
Gene_locus related to this paper: sphpi-linb

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
PubMedID: 17516046
Gene_locus related to this paper: sphpi-linb

Title : A gene linB2 responsible for the conversion of beta-HCH and 2,3,4,5,6-pentachlorocyclohexanol in Sphingomonas sp. BHC-A - Wu_2007_Appl.Microbiol.Biotechnol_73_1097
Author(s) : Wu J , Hong Q , Han P , He J , Li S
Ref : Applied Microbiology & Biotechnology , 73 :1097 , 2007
PubMedID: 16977465
Gene_locus related to this paper: sphpi-linb

Title : A novel pathway for the biodegradation of gamma-hexachlorocyclohexane by a Xanthomonas sp. strain ICH12 - Manickam_2007_J.Appl.Microbiol_102_1468
Author(s) : Manickam N , Misra R , Mayilraj S
Ref : J Appl Microbiol , 102 :1468 , 2007
PubMedID: 17578411
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
PubMedID: 17259360
Gene_locus related to this paper: sphpi-linb

Title : Complete nucleotide sequence of an exogenously isolated plasmid, pLB1, involved in gamma-hexachlorocyclohexane degradation - Miyazaki_2006_Appl.Environ.Microbiol_72_6923
Author(s) : Miyazaki R , Sato Y , Ito M , Ohtsubo Y , Nagata Y , Tsuda M
Ref : Applied Environmental Microbiology , 72 :6923 , 2006
PubMedID: 16963556
Gene_locus related to this paper: sphpi-linb

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
PubMedID: 15736949
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
PubMedID: 14744129
Gene_locus related to this paper: sphpi-linb

Title : Organization of lin genes and IS6100 among different strains of hexachlorocyclohexane-degrading Sphingomonas paucimobilis: evidence for horizontal gene transfer - Dogra_2004_J.Bacteriol_186_2225
Author(s) : Dogra C , Raina V , Pal R , Suar M , Lal S , Gartemann KH , Holliger C , van der Meer JR , Lal R
Ref : Journal of Bacteriology , 186 :2225 , 2004
PubMedID: 15060023
Gene_locus related to this paper: psepa-q6vpf3 , psepa-q6vpf4 , psepa-q6vqy9 , 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
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
PubMedID: 12939138
Gene_locus related to this paper: sphpi-linb

Title : Cloning and characterization of lin genes responsible for the degradation of Hexachlorocyclohexane isomers by Sphingomonas paucimobilis strain B90 - Kumari_2002_Appl.Environ.Microbiol_68_6021
Author(s) : Kumari R , Subudhi S , Suar M , Dhingra G , Raina V , Dogra C , Lal S , van der Meer JR , Holliger C , Lal R
Ref : Applied Environmental Microbiology , 68 :6021 , 2002
PubMedID: 12450824
Gene_locus related to this paper: sphpi-linb

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
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
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
PubMedID: 11087355
Gene_locus related to this paper: sphpi-linb

Title : Two different types of dehalogenases, LinA and LinB, involved in gamma-hexachlorocyclohexane degradation in Sphingomonas paucimobilis UT26 are localized in the periplasmic space without molecular processing - Nagata_1999_J.Bacteriol_181_5409
Author(s) : Nagata Y , Futamura A , Miyauchi K , Takagi M
Ref : Journal of Bacteriology , 181 :5409 , 1999
PubMedID: 10464214
Gene_locus related to this paper: sphpi-linb

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
PubMedID: 10100638
Gene_locus related to this paper: sphpi-linb

Title : Crystallization and preliminary X-ray diffraction analysis of haloalkane dehalogenase LinB from Sphingomonas paucimobilis UT26 - Smatanova_1999_Acta.Crystallogr.D.Biol.Crystallogr_55_1231
Author(s) : Smatanova I , Nagata Y , Svensson LA , Takagi M , Marek J
Ref : Acta Crystallographica D Biol Crystallogr , 55 :1231 , 1999
PubMedID: 10329794
Gene_locus related to this paper: sphpi-linb

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
PubMedID: 9293022
Gene_locus related to this paper: sphpi-linb

Title : Cloning and sequencing of a dehalogenase gene encoding an enzyme with hydrolase activity involved in the degradation of gamma-hexachlorocyclohexane in Pseudomonas paucimobilis - Nagata_1993_J.Bacteriol_175_6403
Author(s) : Nagata Y , Nariya T , Ohtomo R , Fukuda M , Yano K , Takagi M
Ref : Journal of Bacteriology , 175 :6403 , 1993
PubMedID: 7691794
Gene_locus related to this paper: sphpi-linb