Difference between revisions of "Part:BBa K801092:Design"

m
Line 12: Line 12:
 
PMID: 15932991
 
PMID: 15932991
 
<br>'''Keywords:'''
 
<br>'''Keywords:'''
−
<!--These keywords are necessary to find your part using a fulltext sarch.-->
+
Coumaryol-CoA, Coumaroyl-Coenzyme A, Xanthohumol, Biosynthesis, 4-coumarate-coenzyme A ligase, Phenylalanine Ammonia Lyase
−
<!--keyword_1, keyword_2, keyword_3, keyword_4, keyword_5-->
+
  
 
<br>'''Abbreviations:'''
 
<br>'''Abbreviations:'''
−
<!--*used_abbreviation_1 = full_name_of_used_abbreviations_1-->
+
4CL = 4-coumarate-coenzyme A Ligase
−
<!--*used_abbreviation_2 = full_name_of_used_abbreviations_2-->
+
  
 
===Design Notes===
 
===Design Notes===
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<!--*Test digestion using ?enzyme1? & ?enzyme2?/Not yet performed-->
 
<!--*Test digestion using ?enzyme1? & ?enzyme2?/Not yet performed-->
 
<!--*Sequencing using primer ?primer_name?/Not yet sequenced-->
 
<!--*Sequencing using primer ?primer_name?/Not yet sequenced-->
−
<!--*Part was partly sequenced/Part was totally sequenced-->
+
Part was totally sequenced
  
 
'''Backbone:'''<br>
 
'''Backbone:'''<br>
−
<!--*Backbone name: pSB1C3'/?backbone_name?-->
+
Backbone name: pSB1C3
−
<!--*Resistance: Amp/Cp/Kan/Tet-->
+
Resistance: Cp
 
<!--*Copynumber: low/medium/high-->
 
<!--*Copynumber: low/medium/high-->
  
 
'''Protein coding:'''<br>
 
'''Protein coding:'''<br>
−
<!--*Protein: ?Name_of_gene_product? [Nucleotide 1 to ???]-->
+
Protein: 4-coumarate-coenzyme A ligase
 
<!--*The protein has the amino acid replacements ???99??? to ???99???.-->
 
<!--*The protein has the amino acid replacements ???99??? to ???99???.-->
 
<!--*The protein encoded is posttranslationally modified by ???.-->
 
<!--*The protein encoded is posttranslationally modified by ???.-->
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'''Enzymatic activity:'''
 
'''Enzymatic activity:'''
−
<!--none/EC-number ?.?.?.?-->
+
EC-number: 6.2.1.12
  
 
'''Cytotoxicity:'''<br>
 
'''Cytotoxicity:'''<br>
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'''Source:'''<br>
 
'''Source:'''<br>
 
<!--*Commercial system: plasmid name, system name, company name-->
 
<!--*Commercial system: plasmid name, system name, company name-->
−
<!--*Plasmid: p???, provided by ?name_of_person?, ?institute/university?, ?country?-->
+
*Plasmid: pKS2µHyg-PAL-4CL-CHS, provided by John A. Morgan, Purdue University, USA
 
<!--*Preexisting BioBrick ?Bba_number?-->
 
<!--*Preexisting BioBrick ?Bba_number?-->
 
<!--*cDNA Clone: ?clone_name?, ?company_name?-->
 
<!--*cDNA Clone: ?clone_name?, ?company_name?-->
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'''Organism:'''<br>
 
'''Organism:'''<br>
−
<!--*Genesequence derived from ''?organism_name?''-->
+
Genesequence derived from ''Arabidopsis thaliana''
 
<!--*Codonoptimized for ''?organism_name?''-->
 
<!--*Codonoptimized for ''?organism_name?''-->
 
<!--*Designed for the following Chassis: ''?organism-name?''-->
 
<!--*Designed for the following Chassis: ''?organism-name?''-->
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'''Literature references:'''<br>
 
'''Literature references:'''<br>
−
<!--*[http://www.ncbi.nlm.nih.gov/pubmed/?PMID? '''Pubmed:''' ?Author(s)?, ?year?: ?title?]-->
+
[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:'''<br>
 
'''Database references:'''<br>
−
<!--*[http://www.ncbi.nlm.nih.gov/nuccore/?accessNr? '''GenBank''': ?title?]-->
+
[http://www.ncbi.nlm.nih.gov/nuccore/U18675.1 '''GenBank''': Arabidopsis thaliana 4-coumarate--coenzyme A ligase (At4CL1) mRNA, complete cds]
 
<!--*[http://www.ebi.ac.uk/interpro/IEntry?ac=?accessNr? '''Interpro''': ?title?]-->
 
<!--*[http://www.ebi.ac.uk/interpro/IEntry?ac=?accessNr? '''Interpro''': ?title?]-->
−
<!--*[http://www.uniprot.org/uniprot/?accessNr? '''Uniprot''': ?title?]-->
+
[http://www.uniprot.org/uniprot/Q42524  '''Uniprot''': 4-coumarate--CoA ligase 1]-->
 
<!--*[http://pfam.sanger.ac.uk/family/?accessNr? '''Pfam:''' ?title?]-->
 
<!--*[http://pfam.sanger.ac.uk/family/?accessNr? '''Pfam:''' ?title?]-->
 
<!--*[http://www.rcsb.org/pdb/explore/explore.do?structureId=?accessNR? '''PDB:''' ?tile?]-->
 
<!--*[http://www.rcsb.org/pdb/explore/explore.do?structureId=?accessNR? '''PDB:''' ?tile?]-->
 
<!--*[http://www.brenda-enzymes.info/php/result_flat.php4?ecno=?accessNr? '''Branda:''' ?title?]-->
 
<!--*[http://www.brenda-enzymes.info/php/result_flat.php4?ecno=?accessNr? '''Branda:''' ?title?]-->

Revision as of 22:46, 26 September 2012

4-coumarate - coenzym A ligase (4CL) + yeast consensus sequence


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 1092
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BglII site found at 1659
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI.rc site found at 1291


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/nucleotide/609339/

PMID: 15932991
Keywords: Coumaryol-CoA, Coumaroyl-Coenzyme A, Xanthohumol, Biosynthesis, 4-coumarate-coenzyme A ligase, Phenylalanine Ammonia Lyase


Abbreviations: 4CL = 4-coumarate-coenzyme A Ligase

Design Notes

Related BioBrick:

Quality control measures:
Part was totally sequenced

Backbone:
Backbone name: pSB1C3 Resistance: Cp

Protein coding:
Protein: 4-coumarate-coenzyme A ligase

Enzymatic activity: EC-number: 6.2.1.12

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 Arabidopsis thaliana


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/U18675.1 GenBank: Arabidopsis thaliana 4-coumarate--coenzyme A ligase (At4CL1) mRNA, complete cds] [http://www.uniprot.org/uniprot/Q42524 Uniprot: 4-coumarate--CoA ligase 1]-->