User:Mitchell Long/Sandbox 1: Difference between revisions
No edit summary |
No edit summary |
||
| Line 2: | Line 2: | ||
==Introduction== | ==Introduction== | ||
Luciferases are a class of enzymes that catalyze the oxidation of a long chain aliphatic aldehydes. This reaction results in the formation of a carboxylic acid and the emission of photons in the form of blue-green light. | Luciferases are a class of enzymes that catalyze the oxidation of a long chain aliphatic aldehydes. This reaction results in the formation of a carboxylic acid and the emission of photons in the form of blue-green light. The luciferase found in ''''Vibrio harveyi'''' is a heterodimer that is composed of a catalytic α subunit and a homologous but noncatalytic β subunit. The catalytic α subunit houses the FMN cofactor and is connected to the β subunit via a hairpin structure called the "mobile loop." | ||
==Mechanism== | |||
Luciferase found in'''V. Harveyi''' binds noncovalently to a reduced flavin mononucleotide cofactor, an aliphatic aldehyde and oxygen to yield oxidized flavin mononucleotide, water, and carboxylic acid. FMNH<sub>2</sub>+O<sub>2</sub>+RCHO→FMN+RCOOH+H<sub>2</sub>O+hv | |||
| Line 27: | Line 28: | ||
(β/α)<SUB>8</SUB> Barrel- The tertiary structure of the α and β subunits is very similar. both subunits fold into a single-domain eight-stranded β/α barrel motif. the two subunits assemble around a parallel four-helix bundle centered on a pseudo 2-fold axis that relates the alpha and beta subunits. | (β/α)<SUB>8</SUB> Barrel- The tertiary structure of the α and β subunits is very similar. both subunits fold into a single-domain eight-stranded β/α barrel motif. the two subunits assemble around a parallel four-helix bundle centered on a pseudo 2-fold axis that relates the alpha and beta subunits. | ||
.</p> | .</p> | ||
Subunit Homology-the topology of the αand β subunits is identical. In the alpha subnunit, the γ7-α7 loop is 71 residues long and contains 29 residues not present in the beta subunit. | Subunit Homology-the topology of the αand β subunits is identical. In the alpha subnunit, the γ7-α7 loop is 71 residues long and contains 29 residues not present in the beta subunit. | ||
==Applications In Biotechnology== | ==Applications In Biotechnology== | ||
The luciferase assay | The luciferase assay | ||
==Quorum Sensing== | |||
In a process known as quorum sensing, bacteria communicate using secreted signal molecules called autoinducers(AIs). '''V. harveyi''' is a mesophilic, gram negative, rod shaped bacteria that can communicate with other bacteria via quorum sensing. Quorum-sensing bacteria alter gene expression in response to the accumulation of AIs, which reflects an increase in cell population density. This process is believed to provide bacteria a means to coordinately control the gene expression of the group, giving them multicellular characteristics. When bacteria reach a "quorum," their population has reached a density high enough to coordinate gene expression. Often, bacteria make and respond to multiple AIs. Vibrio harveyi, a free-living marine bacterium, produces at least three distinct AIs to control bioluminescence, biofilm formation, Type III Secretion (TTS), and protease production. When a bacterial population density is low, the LuxI gene is transcribed constitutively at basal level. The three V. harveyi AIs are HAI-1, an acyl homoserine lactone; AI-2, a furanosyl-borate-diester; and CAI-1, of unknown structure. When the population density reaches an adequate level, the conjugate receptor LuxR begins transcription. LuxR is the regulatory receptor, and when an AI binds the the LuxR receptor, transcription is turned on resulting in the production of more AI and the expression of other genes involved in quorum sensing. When '''V. harveyi''' reaches a high enough population density, it's quorum sensing genes are activated and the transcription of the genes that code for the luciferase enzyme. | |||
==References== | ==References== | ||
{{Reflist}} | {{Reflist}} | ||
Revision as of 22:10, 17 November 2011
IntroductionLuciferases are a class of enzymes that catalyze the oxidation of a long chain aliphatic aldehydes. This reaction results in the formation of a carboxylic acid and the emission of photons in the form of blue-green light. The luciferase found in 'Vibrio harveyi' is a heterodimer that is composed of a catalytic α subunit and a homologous but noncatalytic β subunit. The catalytic α subunit houses the FMN cofactor and is connected to the β subunit via a hairpin structure called the "mobile loop." MechanismLuciferase found inV. Harveyi binds noncovalently to a reduced flavin mononucleotide cofactor, an aliphatic aldehyde and oxygen to yield oxidized flavin mononucleotide, water, and carboxylic acid. FMNH2+O2+RCHO→FMN+RCOOH+H2O+hv
|
| ||||||||||
| |||||||||
| 3fgc, resolution 2.30Å () | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Ligands: | , , | ||||||||
| Gene: | luxA (Vibrio harveyi), luxB (Vibrio harveyi) | ||||||||
| Activity: | Alkanal monooxygenase (FMN-linked), with EC number 1.14.14.3 | ||||||||
| Related: | 1luc, 1brl | ||||||||
| |||||||||
| |||||||||
| Resources: | FirstGlance, OCA, RCSB, PDBsum | ||||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||||
Mechanism of Bio luminescenceMechanism of Bio luminescence
Luciferase found in 'Vibrio harveyi' is a heterodimer that is composed of a catalytic α subunit and a homologous but noncatalytic β subunit. The catalytic α subunit houses the FMN cofactor and is connected to the β subunit via a hairpin structure called the "mobile loop." The organic substrate for bacterial luciferase in vivo is myristic aldehyde, although many aliphatic aldehydes of various lengths can induce bioluminescence in vitro.
Structural MotifsStructural Motifs
Structure homology-There is a great deal of sequence homology and structural coservation between the α and β subunits. When superimposed over eachother the barrels of the alpha and beta subunits with a deviation of 0.62Å for 42 equivalent α carbons. The region of the beta subunit that contains the 29 residue deletion with respect to the alpha subunit differs notably in arrangement. In the alpha subunit, the α7a helix is straight and extens toward the beta subunit. the region involved with dimerization, helices ⓬ and ⓭ and the hairpin loop structure are exceptionally similar in superposition.
Active Site .
Mobile Loop- Phe2772-thr 288 (β/α)8 Barrel- The tertiary structure of the α and β subunits is very similar. both subunits fold into a single-domain eight-stranded β/α barrel motif. the two subunits assemble around a parallel four-helix bundle centered on a pseudo 2-fold axis that relates the alpha and beta subunits. .
Subunit Homology-the topology of the αand β subunits is identical. In the alpha subnunit, the γ7-α7 loop is 71 residues long and contains 29 residues not present in the beta subunit.
Applications In BiotechnologyApplications In Biotechnology
The luciferase assay
Quorum SensingQuorum Sensing
In a process known as quorum sensing, bacteria communicate using secreted signal molecules called autoinducers(AIs). V. harveyi is a mesophilic, gram negative, rod shaped bacteria that can communicate with other bacteria via quorum sensing. Quorum-sensing bacteria alter gene expression in response to the accumulation of AIs, which reflects an increase in cell population density. This process is believed to provide bacteria a means to coordinately control the gene expression of the group, giving them multicellular characteristics. When bacteria reach a "quorum," their population has reached a density high enough to coordinate gene expression. Often, bacteria make and respond to multiple AIs. Vibrio harveyi, a free-living marine bacterium, produces at least three distinct AIs to control bioluminescence, biofilm formation, Type III Secretion (TTS), and protease production. When a bacterial population density is low, the LuxI gene is transcribed constitutively at basal level. The three V. harveyi AIs are HAI-1, an acyl homoserine lactone; AI-2, a furanosyl-borate-diester; and CAI-1, of unknown structure. When the population density reaches an adequate level, the conjugate receptor LuxR begins transcription. LuxR is the regulatory receptor, and when an AI binds the the LuxR receptor, transcription is turned on resulting in the production of more AI and the expression of other genes involved in quorum sensing. When V. harveyi reaches a high enough population density, it's quorum sensing genes are activated and the transcription of the genes that code for the luciferase enzyme.