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Literature summary for 1.14.12.18 extracted from
- Purification, characterization, and crystallization of the components of a biphenyl dioxygenase system from Sphingobium yanoikuyae B1 (2007), J. Ind. Microbiol. Biotechnol., 34, 311-324.
Cloned(Commentary)
| Cloned (Comment) | Organism |
|---|---|
| expressed in Escherichia coli strain BL21Star | Sphingobium yanoikuyae |
Crystallization (Commentary)
| Crystallization (Comment) | Organism |
|---|---|
| hanging drop vapour diffusion method using 20% (w/v) polyethylene glycol 3350, 1 M NaCl and 0.1 M ZnCl2 at 6°C | Sphingobium yanoikuyae |
Metals/Ions
| Metals/Ions | Comment | Organism | Structure |
|---|---|---|---|
| Iron | exogenous ferrous iron is required for maximal activity, the oxygenase component contains 2.43 g/mol iron, the ferredoxin component contains 2.1 g/mol iron | Sphingobium yanoikuyae |  |
Molecular Weight [Da]
| Molecular Weight [Da] | Molecular Weight Maximum [Da] | Comment | Organism |
|---|---|---|---|
| 12000 | - |
ferredoxin component, SDS-PAGE | Sphingobium yanoikuyae |
| 43000 | - |
reductase component, SDS-PAGE | Sphingobium yanoikuyae |
| 217000 | - |
oxygenase component, SDS-PAGE | Sphingobium yanoikuyae |
Organism
| Organism | UniProt | Comment | Textmining |
|---|---|---|---|
| Sphingobium yanoikuyae | - |
formerly Beijerinckia sp. and Sphingomonas yanoikuyae | - |
| Sphingobium yanoikuyae B1 | - |
formerly Beijerinckia sp. and Sphingomonas yanoikuyae | - |
Purification (Commentary)
| Purification (Comment) | Organism |
|---|---|
| butyl-Sepharose XK26/40 column chromatography, Q-Sepharose column chromatography, and hydroxyapatite column chromatography | Sphingobium yanoikuyae |
Specific Activity [micromol/min/mg]
| Specific Activity Minimum [µmol/min/mg] | Specific Activity Maximum [µmol/min/mg] | Comment | Organism |
|---|---|---|---|
| 28.9 | - |
oxygenase component, crude cell extract | Sphingobium yanoikuyae |
| 217 | - |
oxygenase component, after 10fold purification | Sphingobium yanoikuyae |
Substrates and Products (Substrate)
| Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| benzo[a]pyrene + NADH + O2 | - |
Sphingobium yanoikuyae | ? | - |
? | |
| benzo[a]pyrene + NADH + O2 | - |
Sphingobium yanoikuyae B1 | ? | - |
? | |
| biphenyl + NAD(P)H + O2 | - |
Sphingobium yanoikuyae | cis-biphenyl 2,3-dihydrodiol + NAD(P)+ | - |
? | |
| biphenyl + NAD(P)H + O2 | - |
Sphingobium yanoikuyae B1 | cis-biphenyl 2,3-dihydrodiol + NAD(P)+ | - |
? | |
| naphthalene + NADH + O2 | - |
Sphingobium yanoikuyae | ? | - |
? | |
| naphthalene + NADH + O2 | - |
Sphingobium yanoikuyae B1 | ? | - |
? | |
| phenanthrene + NADH + O2 | - |
Sphingobium yanoikuyae | ? | - |
? | |
| phenanthrene + NADH + O2 | - |
Sphingobium yanoikuyae B1 | ? | - |
? | |
Subunits
| Subunits | Comment | Organism |
|---|---|---|
| heterotrimer | oxygenase component, MALDI-TOF | Sphingobium yanoikuyae |
Synonyms
| Synonyms | Comment | Organism |
|---|---|---|
| biphenyl dioxygenase | - |
Sphingobium yanoikuyae |
| BPDO | - |
Sphingobium yanoikuyae |
Cofactor
| Cofactor | Comment | Organism | Structure |
|---|---|---|---|
| NADH | - |
Sphingobium yanoikuyae | |
| NADPH | - |
Sphingobium yanoikuyae | |
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