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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)DescriptionActionsGraphical viewLength
Binding sitei142SubstrateBy similarity1
Active sitei155Proton acceptorPROSITE-ProRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi10 – 34NADBy similarityAdd BLAST25

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)DescriptionActionsGraphical viewLength
ChainiPRO_00000545321 – 281Cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenaseAdd BLAST281

Interactioni

Subunit structurei

Homotetramer.

Structurei

Secondary structure

1281
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Turni2 – 5Combined sources4
Beta strandi7 – 11Combined sources5
Turni12 – 14Combined sources3
Helixi16 – 27Combined sources12
Beta strandi31 – 37Combined sources7
Helixi39 – 48Combined sources10
Turni49 – 51Combined sources3
Beta strandi53 – 57Combined sources5
Helixi63 – 77Combined sources15
Beta strandi82 – 84Combined sources3
Helixi96 – 98Combined sources3
Turni101 – 103Combined sources3
Helixi104 – 115Combined sources12
Helixi117 – 133Combined sources17
Beta strandi136 – 140Combined sources5
Helixi143 – 145Combined sources3
Beta strandi147 – 151Combined sources5
Helixi153 – 173Combined sources21
Turni174 – 176Combined sources3
Beta strandi177 – 184Combined sources8
Helixi195 – 197Combined sources3
Helixi204 – 206Combined sources3
Helixi209 – 215Combined sources7
Helixi225 – 228Combined sources4
Helixi230 – 236Combined sources7
Turni238 – 240Combined sources3
Beta strandi248 – 254Combined sources7
Helixi255 – 257Combined sources3
Beta strandi260 – 263Combined sources4
Helixi269 – 272Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB 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.
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
PDB 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.
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...

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: November 2, 2016
This is version 92 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.