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P47228

- BPHC_BURXL

UniProt

P47228 - BPHC_BURXL

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Protein

Biphenyl-2,3-diol 1,2-dioxygenase

Gene

bphC

Organism
Burkholderia xenovorans (strain LB400)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli

Functioni

Shows a preference for catechols with groups immediately adjacent to the hydroxyl substituents.

Catalytic activityi

Biphenyl-2,3-diol + O2 = 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate.

Cofactori

Binds 1 Fe2+ ion per subunit.

Kineticsi

Substrate inhibition occurs at 300 µM (+/- 20 µM).

  1. KM=7 µM for biphenyl-2,3-diol

pH dependencei

Optimum pH is 8.0.

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi146 – 1461Iron
Metal bindingi210 – 2101Iron
Metal bindingi260 – 2601Iron

GO - Molecular functioni

  1. biphenyl-2,3-diol 1,2-dioxygenase activity Source: UniProtKB-EC
  2. ferrous iron binding Source: InterPro

GO - Biological processi

  1. aromatic compound catabolic process Source: UniProtKB-KW
  2. xenobiotic catabolic process Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Dioxygenase, Oxidoreductase

Keywords - Biological processi

Aromatic hydrocarbons catabolism

Keywords - Ligandi

Iron, Metal-binding

Enzyme and pathway databases

BioCyciBXEN266265:GJII-8843-MONOMER.
SABIO-RKP47228.
UniPathwayiUPA00155; UER00252.

Names & Taxonomyi

Protein namesi
Recommended name:
Biphenyl-2,3-diol 1,2-dioxygenase (EC:1.13.11.39)
Alternative name(s):
2,3-dihydroxybiphenyl dioxygenase
Short name:
DHBD
23OHBP oxygenase
Gene namesi
Name:bphC
Ordered Locus Names:Bxeno_C1125
ORF Names:Bxe_C1191
OrganismiBurkholderia xenovorans (strain LB400)
Taxonomic identifieri266265 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesBurkholderiaceaeBurkholderia
ProteomesiUP000001817: Chromosome 3

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed1 Publication
Chaini2 – 298297Biphenyl-2,3-diol 1,2-dioxygenasePRO_0000085033Add
BLAST

Interactioni

Subunit structurei

Homooctamer. The enzyme is composed of two planar tetramers rotated at 45 degrees relative to each other, with a channel in the middle.1 Publication

Protein-protein interaction databases

STRINGi266265.Bxe_C1191.

Structurei

Secondary structure

1
298
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi3 – 1412Combined sources
Helixi16 – 2510Combined sources
Beta strandi30 – 356Combined sources
Beta strandi38 – 4710Combined sources
Beta strandi49 – 546Combined sources
Beta strandi59 – 6911Combined sources
Helixi70 – 8213Combined sources
Helixi92 – 987Combined sources
Beta strandi101 – 1077Combined sources
Beta strandi113 – 1186Combined sources
Beta strandi131 – 1333Combined sources
Helixi140 – 1423Combined sources
Beta strandi146 – 1505Combined sources
Helixi154 – 16310Combined sources
Beta strandi168 – 17811Combined sources
Beta strandi181 – 19414Combined sources
Beta strandi196 – 2005Combined sources
Beta strandi205 – 21612Combined sources
Helixi218 – 22912Combined sources
Turni230 – 2323Combined sources
Beta strandi234 – 24411Combined sources
Beta strandi247 – 2526Combined sources
Beta strandi258 – 2636Combined sources
Beta strandi275 – 2784Combined sources
Beta strandi280 – 2845Combined sources

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1HANX-ray1.90A2-298[»]
1KMYX-ray2.00A2-298[»]
1KNDX-ray1.90A2-298[»]
1KNFX-ray1.90A2-298[»]
1LGTX-ray1.70A2-298[»]
1LKDX-ray1.70A2-298[»]
ProteinModelPortaliP47228.
SMRiP47228. Positions 2-289.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP47228.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0346.
HOGENOMiHOG000052193.
KOiK00462.
OMAiRIDSRAW.
OrthoDBiEOG64JFM4.

Family and domain databases

Gene3Di3.10.180.10. 2 hits.
InterProiIPR017626. DiOHbiphenyl_dOase.
IPR029068. Glyas_Bleomycin-R_OHBP_Dase.
IPR004360. Glyas_Fos-R_dOase_dom.
IPR000486. Xdiol_ring_cleave_dOase_1/2.
[Graphical view]
PfamiPF00903. Glyoxalase. 1 hit.
[Graphical view]
SUPFAMiSSF54593. SSF54593. 2 hits.
TIGRFAMsiTIGR03213. 23dbph12diox. 1 hit.
PROSITEiPS00082. EXTRADIOL_DIOXYGENAS. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P47228-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSIRSLGYMG FAVSDVAAWR SFLTQKLGLM EAGTTDNGDL FRIDSRAWRI
60 70 80 90 100
AVQQGEVDDL AFAGYEVADA AGLAQMADKL KQAGIAVTTG DASLARRRGV
110 120 130 140 150
TGLITFADPF GLPLEIYYGA SEVFEKPFLP GAAVSGFLTG EQGLGHFVRC
160 170 180 190 200
VPDSDKALAF YTDVLGFQLS DVIDMKMGPD VTVPAYFLHC NERHHTLAIA
210 220 230 240 250
AFPLPKRIHH FMLEVASLDD VGFAFDRVDA DGLITSTLGR HTNDHMVSFY
260 270 280 290
ASTPSGVEVE YGWSARTVDR SWVVVRHDSP SMWGHKSVRD KAAARNKA
Length:298
Mass (Da):32,471
Last modified:January 23, 2007 - v2
Checksum:iADC0E4709E193FAB
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X66122 Genomic DNA. Translation: CAA46910.1.
CP000272 Genomic DNA. Translation: ABE37053.1.
PIRiJN0815.
RefSeqiWP_011494295.1. NC_007953.1.
YP_556403.1. NC_007953.1.

Genome annotation databases

EnsemblBacteriaiABE37053; ABE37053; Bxe_C1191.
GeneIDi4010703.
KEGGibxe:Bxe_C1191.
PATRICi19343367. VBIBurXen52548_8941.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X66122 Genomic DNA. Translation: CAA46910.1 .
CP000272 Genomic DNA. Translation: ABE37053.1 .
PIRi JN0815.
RefSeqi WP_011494295.1. NC_007953.1.
YP_556403.1. NC_007953.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1HAN X-ray 1.90 A 2-298 [» ]
1KMY X-ray 2.00 A 2-298 [» ]
1KND X-ray 1.90 A 2-298 [» ]
1KNF X-ray 1.90 A 2-298 [» ]
1LGT X-ray 1.70 A 2-298 [» ]
1LKD X-ray 1.70 A 2-298 [» ]
ProteinModelPortali P47228.
SMRi P47228. Positions 2-289.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 266265.Bxe_C1191.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABE37053 ; ABE37053 ; Bxe_C1191 .
GeneIDi 4010703.
KEGGi bxe:Bxe_C1191.
PATRICi 19343367. VBIBurXen52548_8941.

Phylogenomic databases

eggNOGi COG0346.
HOGENOMi HOG000052193.
KOi K00462.
OMAi RIDSRAW.
OrthoDBi EOG64JFM4.

Enzyme and pathway databases

UniPathwayi UPA00155 ; UER00252 .
BioCyci BXEN266265:GJII-8843-MONOMER.
SABIO-RK P47228.

Miscellaneous databases

EvolutionaryTracei P47228.

Family and domain databases

Gene3Di 3.10.180.10. 2 hits.
InterProi IPR017626. DiOHbiphenyl_dOase.
IPR029068. Glyas_Bleomycin-R_OHBP_Dase.
IPR004360. Glyas_Fos-R_dOase_dom.
IPR000486. Xdiol_ring_cleave_dOase_1/2.
[Graphical view ]
Pfami PF00903. Glyoxalase. 1 hit.
[Graphical view ]
SUPFAMi SSF54593. SSF54593. 2 hits.
TIGRFAMsi TIGR03213. 23dbph12diox. 1 hit.
PROSITEi PS00082. EXTRADIOL_DIOXYGENAS. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Genetic analysis of a Pseudomonas locus encoding a pathway for biphenyl/polychlorinated biphenyl degradation."
    Hofer B., Eltis L.D., Dowling D.N., Timmis K.N.
    Gene 130:47-55(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: LB400.
  3. "Purification and crystallization of 2,3-dihydroxybiphenyl 1,2-dioxygenase."
    Eltis L.D., Hofmann B., Hecht H.J., Luensdorf H., Timmis K.N.
    J. Biol. Chem. 268:2727-2732(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 2-32, SUBSTRATE CHARACTERIZATION, PRELIMINARY CRYSTALLIZATION, SUBUNIT.
  4. "Crystal structure of the biphenyl-cleaving extradiol dioxygenase from a PCB-degrading pseudomonad."
    Han S., Eltis L.D., Timmis K.N., Muchmore S.W., Bolin J.T.
    Science 270:976-980(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS).
  5. "Molecular basis for the stabilization and inhibition of 2,3-dihydroxybiphenyl 1,2-dioxygenase by t-butanol."
    Vaillancourt F.H., Han S., Fortin P.D., Bolin J.T., Eltis L.D.
    J. Biol. Chem. 273:34887-34895(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS).

Entry informationi

Entry nameiBPHC_BURXL
AccessioniPrimary (citable) accession number: P47228
Secondary accession number(s): Q13FT6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1996
Last sequence update: January 23, 2007
Last modified: October 29, 2014
This is version 112 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3