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Protein

Cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase

Gene

bphB

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

Functioni

Catalytic activityi

Cis-3-phenylcyclohexa-3,5-diene-1,2-diol + NAD+ = biphenyl-2,3-diol + NADH.

Pathwayi: biphenyl degradation

This protein is involved in step 2 of the subpathway that synthesizes 2-hydroxy-2,4-pentadienoate and benzoate from biphenyl.
Proteins known to be involved in the 4 steps of the subpathway in this organism are:
  1. Biphenyl dioxygenase subunit alpha (bphA), Biphenyl dioxygenase subunit beta (bphE)
  2. Cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase (bphB)
  3. Biphenyl-2,3-diol 1,2-dioxygenase (bphC)
  4. 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase (bphD)
This subpathway is part of the pathway biphenyl degradation, which is itself part of Xenobiotic degradation.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes 2-hydroxy-2,4-pentadienoate and benzoate from biphenyl, the pathway biphenyl degradation and in Xenobiotic degradation.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei59 – 591NAD1 Publication
Binding sitei142 – 1421SubstrateBy similarity
Active sitei155 – 1551Proton acceptor
Binding sitei159 – 1591NAD1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi9 – 3628NAD1 PublicationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Aromatic hydrocarbons catabolism

Keywords - Ligandi

NAD

Enzyme and pathway databases

BioCyciBXEN266265:GJII-8844-MONOMER.
BRENDAi1.3.1.56. 5085.
UniPathwayiUPA00155; UER00251.

Names & Taxonomyi

Protein namesi
Recommended name:
Cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase (EC:1.3.1.56)
Alternative name(s):
2,3-dihydro-2,3-dihydroxybiphenyl dehydrogenase
2,3-dihydroxy-4-phenylhexa-4,6-diene dehydrogenase
Biphenyl-2,3-dihydro-2,3-diol dehydrogenase
Biphenyl-cis-diol dehydrogenase
Gene namesi
Name:bphB
Ordered Locus Names:Bxeno_C1126
ORF Names:Bxe_C1192
OrganismiBurkholderia xenovorans (strain LB400)
Taxonomic identifieri266265 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesBurkholderiaceaeParaburkholderia
Proteomesi
  • UP000001817 Componenti: Chromosome 3

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 277277Cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenasePRO_0000054531Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi266265.Bxe_C1192.

Structurei

Secondary structure

1
277
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Turni2 – 54Combined sources
Beta strandi7 – 115Combined sources
Turni12 – 143Combined sources
Helixi16 – 2712Combined sources
Beta strandi31 – 377Combined sources
Helixi39 – 4911Combined sources
Helixi50 – 523Combined sources
Beta strandi53 – 575Combined sources
Helixi63 – 7715Combined sources
Beta strandi82 – 843Combined sources
Helixi96 – 983Combined sources
Turni101 – 1033Combined sources
Helixi104 – 11512Combined sources
Helixi117 – 13317Combined sources
Beta strandi136 – 1405Combined sources
Helixi143 – 1453Combined sources
Helixi153 – 17321Combined sources
Turni174 – 1763Combined sources
Beta strandi178 – 1847Combined sources
Helixi195 – 1973Combined sources
Helixi209 – 2135Combined sources
Turni214 – 2163Combined sources
Helixi225 – 2284Combined sources
Helixi230 – 2367Combined sources
Helixi238 – 2414Combined sources
Beta strandi248 – 2547Combined sources
Helixi255 – 2573Combined sources
Helixi269 – 2735Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1BDBX-ray2.00A1-277[»]
ProteinModelPortaliP47227.
SMRiP47227. Positions 1-276.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP47227.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4108QJ2. Bacteria.
ENOG410XQCB. LUCA.
KOiK08690.
OMAiEVFHINV.
OrthoDBiPOG091H0C0P.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
InterProiIPR017711. BphB_TodD.
IPR016040. NAD(P)-bd_dom.
IPR020904. Sc_DH/Rdtase_CS.
IPR002347. SDR_fam.
[Graphical view]
PANTHERiPTHR24322. PTHR24322. 2 hits.
PfamiPF00106. adh_short. 1 hit.
[Graphical view]
PRINTSiPR00081. GDHRDH.
PR00080. SDRFAMILY.
SUPFAMiSSF51735. SSF51735. 1 hit.
TIGRFAMsiTIGR03325. BphB_TodD. 1 hit.
PROSITEiPS00061. ADH_SHORT. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P47227-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKLKGEAVLI TGGASGLGRA LVDRFVAEGA KVAVLDKSAE RLAELETDHG
60 70 80 90 100
DNVLGIVGDV RSLEDQKQAA SRCVARFGKI DTLIPNAGIW DYSTALVDLP
110 120 130 140 150
EESLDAAFDE VFHINVKGYI HAVKACLPAL VASRGNVIFT ISNAGFYPNG
160 170 180 190 200
GGPLYTAAKH AIVGLVRELA FELAPYVRVN GVGSGGINSD LRGPSSLGMG
210 220 230 240 250
SKAISTVPLA DMLKSVLPIG RMPEVEEYTG AYVFFATRGD AAPATGALLN
260 270
YDGGLGVRGF FSGAGGNDLL EQLNIHP
Length:277
Mass (Da):28,901
Last modified:February 1, 1996 - v1
Checksum:i00194120BD4E12D1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X66122 Genomic DNA. Translation: CAA46909.1.
CP000272 Genomic DNA. Translation: ABE37054.1.
M86348 Genomic DNA. Translation: AAB63430.2.
PIRiJN0814.
RefSeqiWP_011494296.1. NZ_CP008761.1.

Genome annotation databases

EnsemblBacteriaiABE37054; ABE37054; Bxe_C1192.
GeneIDi4010704.
KEGGibxb:DR64_8613.
bxe:Bxe_C1192.
PATRICi19343369. VBIBurXen52548_8942.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X66122 Genomic DNA. Translation: CAA46909.1.
CP000272 Genomic DNA. Translation: ABE37054.1.
M86348 Genomic DNA. Translation: AAB63430.2.
PIRiJN0814.
RefSeqiWP_011494296.1. NZ_CP008761.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1BDBX-ray2.00A1-277[»]
ProteinModelPortaliP47227.
SMRiP47227. Positions 1-276.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi266265.Bxe_C1192.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABE37054; ABE37054; Bxe_C1192.
GeneIDi4010704.
KEGGibxb:DR64_8613.
bxe:Bxe_C1192.
PATRICi19343369. VBIBurXen52548_8942.

Phylogenomic databases

eggNOGiENOG4108QJ2. Bacteria.
ENOG410XQCB. LUCA.
KOiK08690.
OMAiEVFHINV.
OrthoDBiPOG091H0C0P.

Enzyme and pathway databases

UniPathwayiUPA00155; UER00251.
BioCyciBXEN266265:GJII-8844-MONOMER.
BRENDAi1.3.1.56. 5085.

Miscellaneous databases

EvolutionaryTraceiP47227.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
InterProiIPR017711. BphB_TodD.
IPR016040. NAD(P)-bd_dom.
IPR020904. Sc_DH/Rdtase_CS.
IPR002347. SDR_fam.
[Graphical view]
PANTHERiPTHR24322. PTHR24322. 2 hits.
PfamiPF00106. adh_short. 1 hit.
[Graphical view]
PRINTSiPR00081. GDHRDH.
PR00080. SDRFAMILY.
SUPFAMiSSF51735. SSF51735. 1 hit.
TIGRFAMsiTIGR03325. BphB_TodD. 1 hit.
PROSITEiPS00061. ADH_SHORT. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiBPHB_BURXL
AccessioniPrimary (citable) accession number: P47227
Secondary accession number(s): Q13FT5, Q52435
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1996
Last sequence update: February 1, 1996
Last modified: September 7, 2016
This is version 123 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.