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Protein

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

Gene

bphB

Organism
Comamonas testosteroni (Pseudomonas testosteroni)
Status
Reviewed-Annotation score: Annotation score: 3 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 beta (bphE), Biphenyl dioxygenase subunit alpha (bphA)
  2. Cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase (bphB)
  3. no protein annotated in this organism
  4. 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase (bphD), 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 sitei142 – 1421SubstrateBy similarity
Active sitei155 – 1551Proton acceptorPROSITE-ProRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi10 – 3425NADBy similarityAdd
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

BRENDAi1.3.1.56. 1590.
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
B2,3D
Biphenyl-2,3-dihydro-2,3-diol dehydrogenase
Biphenyl-cis-diol dehydrogenase
Gene namesi
Name:bphB
OrganismiComamonas testosteroni (Pseudomonas testosteroni)
Taxonomic identifieri285 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesComamonadaceaeComamonas

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 281281Cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenasePRO_0000054532Add
BLAST

Interactioni

Subunit structurei

Homotetramer.

Structurei

Secondary structure

1
281
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 – 4810Combined sources
Turni49 – 513Combined 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
Beta strandi147 – 1515Combined sources
Helixi153 – 17321Combined sources
Turni174 – 1763Combined sources
Beta strandi177 – 1848Combined sources
Helixi195 – 1973Combined sources
Helixi204 – 2063Combined sources
Helixi209 – 2157Combined sources
Helixi225 – 2284Combined sources
Helixi230 – 2367Combined sources
Turni238 – 2403Combined sources
Beta strandi248 – 2547Combined sources
Helixi255 – 2573Combined sources
Beta strandi260 – 2634Combined sources
Helixi269 – 2724Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2Y93X-ray2.22A/B1-281[»]
2Y99X-ray2.50A/B1-281[»]
3ZV3X-ray2.90A/B1-281[»]
3ZV4X-ray1.80A/B1-281[»]
3ZV5X-ray2.40A/B1-281[»]
3ZV6X-ray2.14A/B1-281[»]
ProteinModelPortaliQ46381.
SMRiQ46381. Positions 1-276.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ46381.

Family & Domainsi

Sequence similaritiesi

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.

Q46381-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKLTGEVALI TGGASGLGRA LVDRFVAEGA RVAVLDKSAE RLRELEVAHG
60 70 80 90 100
GNAVGVVGDV RSLQDQKRAA ERCLAAFGKI DTLIPNAGIW DYSTALADLP
110 120 130 140 150
EDKIDAAFDD IFHVNVKGYI HAVKACLPAL VSSRGSVVFT ISNAGFYPNG
160 170 180 190 200
GGPLYTATKH AVVGLVRQMA FELAPHVRVN GVAPGGMNTD LRGPSSLGLS
210 220 230 240 250
EQSISSVPLA DMLKSVLPIG RMPALEEYTG AYVFFATRGD SLPATGALLN
260 270 280
YDGGMGVRGF LTAAGGADLP EKLNINREGQ E
Length:281
Mass (Da):29,350
Last modified:November 1, 1996 - v1
Checksum:iD50A4CC9167A113E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U57451 mRNA. Translation: AAB18304.1.
U47637 Genomic DNA. Translation: AAC44530.1.
PIRiPC4213.

Genome annotation databases

KEGGiag:AAB18304.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U57451 mRNA. Translation: AAB18304.1.
U47637 Genomic DNA. Translation: AAC44530.1.
PIRiPC4213.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2Y93X-ray2.22A/B1-281[»]
2Y99X-ray2.50A/B1-281[»]
3ZV3X-ray2.90A/B1-281[»]
3ZV4X-ray1.80A/B1-281[»]
3ZV5X-ray2.40A/B1-281[»]
3ZV6X-ray2.14A/B1-281[»]
ProteinModelPortaliQ46381.
SMRiQ46381. Positions 1-276.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

KEGGiag:AAB18304.

Enzyme and pathway databases

UniPathwayiUPA00155; UER00251.
BRENDAi1.3.1.56. 1590.

Miscellaneous databases

EvolutionaryTraceiQ46381.

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...

Publicationsi

  1. "Characterization of active recombinant 2,3-dihydro-2,3-dihydroxybiphenyl dehydrogenase from Comamonas testosteroni B-356 and sequence of the encoding gene (bphB)."
    Sylvestre M., Hurtubise Y., Barriault D., Bergeron J., Ahmad D.
    Appl. Environ. Microbiol. 62:2710-2715(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], CHARACTERIZATION.
    Strain: B-356.
  2. "Sequencing of Comamonas testosteroni strain B-356-biphenyl/chlorobiphenyl dioxygenase genes: evolutionary relationships among Gram-negative bacterial biphenyl dioxygenases."
    Sylvestre M., Sirois M., Hurtubise Y., Bergeron J., Ahmad D., Shareck F., Barriault D., Guillemette I., Juteau J.-M.
    Gene 174:195-202(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-15.
    Strain: B-356.

Entry informationi

Entry nameiBPHB_COMTE
AccessioniPrimary (citable) accession number: Q46381
Secondary accession number(s): Q46376
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: November 1, 1996
Last modified: April 13, 2016
This is version 90 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

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.