Difference between revisions of "Part:BBa K801090:Design"

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<partinfo>BBa_K801090 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K801090 SequenceAndFeatures</partinfo>
  
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Plasmid (template for PCR) provided by John A. Morgan, School of Chemical Engineering, Purdue University, West Lafayette, Indiana, USA
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http://www.ncbi.nlm.nih.gov/nuccore/AX366866
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PMID: 15932991
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<br>'''Keywords:'''
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Coumaryol-CoA, Coumaroyl-Coenzyme A, Xanthohumol, Biosynthesis, 4-coumarate-coenzyme A ligase
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<br>'''Abbreviations:'''
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PAL = Phenylalanine Ammonia Lyase
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<!--*used_abbreviation_1 = full_name_of_used_abbreviations_1-->
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<!--*used_abbreviation_2 = full_name_of_used_abbreviations_2-->
  
 
===Design Notes===
 
===Design Notes===
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-
 
  
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'''Related BioBrick:'''
  
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Other versions: [https://parts.igem.org/Part:BBa_K801091 BBa_K801091: PAL coding region]
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Related BioBricks:
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* [https://parts.igem.org/Part:BBa_K801091 BBa_K801091: phenylalanine ammonia lyase (PAL) coding region]
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* [https://parts.igem.org/Part:BBa_K801092 BBa_K801092: 4-coumarate - coenzym A ligase (4CL) + yeast consensus sequence]
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* [https://parts.igem.org/Part:BBa_K801093 BBa_K801093: 4-coumarate--coenzyme A ligase (4CL) coding region]
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* [https://parts.igem.org/Part:BBa_K801094 BBa_K801094: Naringenin - chalcone synthase (CHS) + yeast consensus sequence]
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* [https://parts.igem.org/Part:BBa_K801095 BBa_K801095: Naringenin - chalcone synthase (CHS) coding region]
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* [https://parts.igem.org/Part:BBa_K801096 BBa_K801096: Aromatic prenyltransferase (APT) coding region]
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* [https://parts.igem.org/Part:BBa_K801097 BBa_K801097: Chalcone O-methyltransferase (OMT1) + yeast consensus sequence]
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* [https://parts.igem.org/Part:BBa_K801098 BBa_K801098: O-methyltransferase 1 (OMT1) coding region]
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'''Cloning details:'''<br>
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Designed in RFC10
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<!--*Mutation C889G to delete XbaI restriction site-->
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<!--*Truncation upstream/downstream compared to template, ?explanation?-->
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'''Quality control measures:'''<br>
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<!--*Test digestion using ?enzyme1? & ?enzyme2?/Not yet performed-->
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<!--*Sequencing using primer ?primer_name?/Not yet sequenced-->
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Part was totally sequenced
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'''Backbone:'''<br>
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*Backbone name: pSB1C3
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*Resistance: Cp
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*Copynumber: high
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'''Protein coding:'''<br>
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*Protein: Phenylalanine Ammonia Lyase
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<!--*The protein has the amino acid replacements ???99??? to ???99???.-->
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<!--*The protein encoded is posttranslationally modified by ???.-->
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*Tag: c-terminally fused Strep
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'''Enzymatic activity:'''
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EC-number 4.3.1.25
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'''Cytotoxicity:'''<br>
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<!--none/not known/cytotoxic for ''organism name''-->
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'''Safety notes:'''<br>
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<!--Known and anticipated sefety issues: none/health_risk/environmental_risk/other_risk-->
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<!--Known and anticipated security issues: none/other.-->
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'''Intellectual property:'''
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<!--Information on patent situation.-->
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<!--Intellectual property claims made by the authors.-->
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'''Corresponding part author/authors:'''
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<!--https://igem.org/User_Information.cgi?user_id=????/email-->
  
 
===Source===
 
===Source===
  
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Plasmid (template for PCR) provided by John A. Morgan, School of Chemical Engineering, Purdue University, West Lafayette, Indiana, USA
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'''Source:'''<br>
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<!--*Commercial system: plasmid name, system name, company name-->
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Plasmid: pKS2µHyg-PAL-4CL-CHS, provided by John A. Morgan, Purdue University, USA
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<!--*Preexisting BioBrick ?Bba_number?-->
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<!--*cDNA Clone: ?clone_name?, ?company_name?-->
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<!--*Synthesized by ?company_name?.-->
  
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http://www.ncbi.nlm.nih.gov/nuccore/AX366866
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<!--'''Forward Primer:'''<br><code>5'- ??? - 3'</code><br>-->
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<!--'''Reverse Primer:'''<br><code>5'- ??? - 3'</code><br>-->
  
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PMID: 15932991
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'''Organism:'''<br>
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Genesequence derived from ''Rhodosporidium toruloides'
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<!--*Codonoptimized for ''?organism_name?''-->
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<!--*Designed for the following Chassis: ''?organism-name?''-->
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<!--*Statement about functionality in other chassis.-->
  
 
===References===
 
===References===
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<!-- Here you find templates to insert references to literature and different databases-->
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'''Literature references:'''<br>
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[http://www.ncbi.nlm.nih.gov/pubmed/15932991 '''Pubmed''' : Jiang, H., Wood, K.V., Morgan, J.A., 2005. Metabolic Engineering of the Phenylpropanoid Pathway in Saccharomyces cerevisiae. Appl. Environ. Microbiol. 71, 2962–2969]
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'''Database references:'''<br>
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[http://www.ncbi.nlm.nih.gov/nuccore/AX366866 '''GenBank''': Sequence 18 from Patent WO0208402]
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<!--*[http://www.ebi.ac.uk/interpro/IEntry?ac=?accessNr? '''Interpro''': ?title?]-->
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[http://www.uniprot.org/uniprot/P11544 '''Uniprot''': Phenylalanine/tyrosine ammonia-lyase]
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<!--*[http://pfam.sanger.ac.uk/family/?accessNr? '''Pfam:''' ?title?]-->
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<!--*[http://www.rcsb.org/pdb/explore/explore.do?structureId=?accessNR? '''PDB:''' ?tile?]-->
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<!--*[http://www.brenda-enzymes.info/php/result_flat.php4?ecno=?accessNr? '''Branda:''' ?title?]-->

Latest revision as of 12:07, 3 October 2012

phenylalanine ammonia lyase (PAL) + yeast consensus sequence


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BglII site found at 2096
    Illegal BamHI site found at 358
    Illegal XhoI site found at 409
    Illegal XhoI site found at 472
    Illegal XhoI site found at 490
    Illegal XhoI site found at 568
    Illegal XhoI site found at 769
    Illegal XhoI site found at 1012
    Illegal XhoI site found at 1759
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal NgoMIV site found at 928
    Illegal NgoMIV site found at 1174
    Illegal NgoMIV site found at 1342
    Illegal NgoMIV site found at 1485
    Illegal NgoMIV site found at 1819
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI site found at 469
    Illegal BsaI site found at 799
    Illegal BsaI site found at 805
    Illegal BsaI.rc site found at 1930
    Illegal SapI site found at 759



Plasmid (template for PCR) provided by John A. Morgan, School of Chemical Engineering, Purdue University, West Lafayette, Indiana, USA

http://www.ncbi.nlm.nih.gov/nuccore/AX366866

PMID: 15932991


Keywords: Coumaryol-CoA, Coumaroyl-Coenzyme A, Xanthohumol, Biosynthesis, 4-coumarate-coenzyme A ligase


Abbreviations: PAL = Phenylalanine Ammonia Lyase

Design Notes

Related BioBrick:

Other versions: BBa_K801091: PAL coding region

Related BioBricks:

Cloning details:
Designed in RFC10

Quality control measures:
Part was totally sequenced

Backbone:

  • Backbone name: pSB1C3
  • Resistance: Cp
  • Copynumber: high

Protein coding:

  • Protein: Phenylalanine Ammonia Lyase
  • Tag: c-terminally fused Strep

Enzymatic activity: EC-number 4.3.1.25

Cytotoxicity:

Safety notes:

Intellectual property:

Corresponding part author/authors:

Source

Source:
Plasmid: pKS2µHyg-PAL-4CL-CHS, provided by John A. Morgan, Purdue University, USA


Organism:
Genesequence derived from Rhodosporidium toruloides'

References

Literature references:
[http://www.ncbi.nlm.nih.gov/pubmed/15932991 Pubmed : Jiang, H., Wood, K.V., Morgan, J.A., 2005. Metabolic Engineering of the Phenylpropanoid Pathway in Saccharomyces cerevisiae. Appl. Environ. Microbiol. 71, 2962–2969]

Database references:
[http://www.ncbi.nlm.nih.gov/nuccore/AX366866 GenBank: Sequence 18 from Patent WO0208402]

[http://www.uniprot.org/uniprot/P11544 Uniprot: Phenylalanine/tyrosine ammonia-lyase]