User:Etienne Robillard/Notebook/Agent Ecoli:SolidPhasePeptideSynthesisReagentEvidencesInAgentScoobyDoo

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== Measuring the amplitude of the synthetic reagent lysis TE buffer on NMDA receptor ==
== Measuring the amplitude of the synthetic reagent lysis TE buffer on NMDA receptor ==
* Date: 2012/12/03 10:29 AM EDT   
* Date: 2012/12/03 10:29 AM EDT   
* Organism: E. coli (K-12 substr.)
* Organism: E. coli (K-12 substr.)
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* Strain: MG1655(?)
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* Strain: [http://cgsc2.biology.yale.edu/Strain.php?ID=65553 BW26434]
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=== Hypothesis ===
=== Hypothesis ===
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Amine protection groups (piperidine based) undergo chiral nucleophilic substitution on Histidine based autophosphorylation.  
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* Amine protection groups (piperidine based) undergo chiral nucleophilic substitution on Histidine based autophosphorylation.  
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* Cosmid like recombinase system for -35 lacl+ (LacZ) transcription, thus no infection produced; (no lacY)
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* orthogonal oligo/peptide protection using methylamino (methyltransferase) agents; 
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* methylamino buffering agents used as intermediates for orthogonal protection; (probably a side-effect of Magnesium chelation with EDTA?)
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* artificial cos-mid size is 30-45 bp length => reduced genome ?
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* The NMDA receptor is voltage gated: [http://www.physicsforums.com/showthread.php?t=632781 The addition of EDTA (mg2+) ions to the reaction may act as '''NMDA receptor antagonist''' by binding to the NMDA ligand...]
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* [[IPTG]] induction is a chemical reaction which may be neutralized with 1mL NaHC03... (Sodium bicarbonate, 2.99$) [[http://en.wikipedia.org/wiki/Sodium_bicarbonate#Neutralization_of_acids_and_bases 1]] [[http://bioserv.fiu.edu/~biolab/labs/genetics/lac%20operon.htm 2]] [[http://www.openwetware.org/wiki/BE.109:Protein_engineering/Assessing_beta-galactosidase 3]] [[http://www.openwetware.org/wiki/Beta-Galactosidase_Assay_(A_better_Miller) 4]]
=== Experiment ===
=== Experiment ===
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* [[IPTG]] inducible promoter: DNA lambda prophage induction (Transformation or mutation from lytic lacZ-repressed state to lysogenic!)
* [[IPTG]] inducible promoter: DNA lambda prophage induction (Transformation or mutation from lytic lacZ-repressed state to lysogenic!)
** in that case a matching E. coli genotype is "HB101 lacIq, lacY+" (ie [http://partsregistry.org/Part:BBa_V1003 laclq])
** in that case a matching E. coli genotype is "HB101 lacIq, lacY+" (ie [http://partsregistry.org/Part:BBa_V1003 laclq])
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** From [http://www.sigmaaldrich.com/life-science/molecular-biology/cloning-and-expression/learning-center/genotypes-of-e-coli.html Sigma], the expected genotype matching the laclq strain is:
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*** HB101 F– Δ(gpt-proA)62 leuB6 glnV44 ara-14 galK2 lacY1 Δ(mcrC-mrr) rpsL20 (Strr) xyl-5 mtl-1 recA13h
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* (2R)-2-(methylamino)succinic acid - An orthogonal N-methyltransferase/NH2 base labile compound; exogenous NMDA receptor antagonist compound (Ketamine-like); synthetically recombined oligonucleotide protection group (dA-dT) for solid-phase peptide synthesis (SPPS), etc (see also [[PHP]], [[Succinic_acid]], and BW26434.)
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** important: N-methyl-D-asparte receptor is a "sensory" neurotransmitter with analogous functions to the TRPV neurotransmitter but for brain functions including learning and memory.
==== References ====
==== References ====
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* [http://cgsc.biology.yale.edu/Strain.php?ID=9130 AB266]
* [http://cgsc.biology.yale.edu/Strain.php?ID=9130 AB266]
* [http://cgsc.biology.yale.edu/Strain.php?ID=11958 E.coli B]: WOOP WOOP
* [http://cgsc.biology.yale.edu/Strain.php?ID=11958 E.coli B]: WOOP WOOP
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* [[IPTG]]
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* [[EDTA]]

Current revision

It has been requested that this page be removed with restriction endonucleases.
Other articles for deletion are listed here.


Contents

Measuring the amplitude of the synthetic reagent lysis TE buffer on NMDA receptor

  • Date: 2012/12/03 10:29 AM EDT
  • Organism: E. coli (K-12 substr.)
  • Strain: BW26434


Hypothesis

  • Amine protection groups (piperidine based) undergo chiral nucleophilic substitution on Histidine based autophosphorylation.
  • Cosmid like recombinase system for -35 lacl+ (LacZ) transcription, thus no infection produced; (no lacY)
  • orthogonal oligo/peptide protection using methylamino (methyltransferase) agents;
  • methylamino buffering agents used as intermediates for orthogonal protection; (probably a side-effect of Magnesium chelation with EDTA?)
  • artificial cos-mid size is 30-45 bp length => reduced genome ?
  • The NMDA receptor is voltage gated: The addition of EDTA (mg2+) ions to the reaction may act as NMDA receptor antagonist by binding to the NMDA ligand...
  • IPTG induction is a chemical reaction which may be neutralized with 1mL NaHC03... (Sodium bicarbonate, 2.99$) [1] [2] [3] [4]

Experiment

Material

  • 1 x 10ml TE = TAE -> 10x buffer (Tris-HCl) (see [TE]

Expected results

  • Amine protection groups = piperidine derived compound (NH2 undergo nucleophilic substitution on Histidine based autophosphorylation)
  • a heterocyclic base-labile group (NHC?)
  • IPTG inducible promoter: DNA lambda prophage induction (Transformation or mutation from lytic lacZ-repressed state to lysogenic!)
    • in that case a matching E. coli genotype is "HB101 lacIq, lacY+" (ie laclq)
    • From Sigma, the expected genotype matching the laclq strain is:
      • HB101 F– Δ(gpt-proA)62 leuB6 glnV44 ara-14 galK2 lacY1 Δ(mcrC-mrr) rpsL20 (Strr) xyl-5 mtl-1 recA13h
  • (2R)-2-(methylamino)succinic acid - An orthogonal N-methyltransferase/NH2 base labile compound; exogenous NMDA receptor antagonist compound (Ketamine-like); synthetically recombined oligonucleotide protection group (dA-dT) for solid-phase peptide synthesis (SPPS), etc (see also PHP, Succinic_acid, and BW26434.)
    • important: N-methyl-D-asparte receptor is a "sensory" neurotransmitter with analogous functions to the TRPV neurotransmitter but for brain functions including learning and memory.

References

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