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

(→‎Source)
Line 14: Line 14:
  
 
<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
−
<!--keyword_1, keyword_2, keyword_3, keyword_4, keyword_5-->
+
  
 
<br>'''Abbreviations:'''
 
<br>'''Abbreviations:'''
 +
PAL = Phenylalanine Ammonia Lyase
 
<!--*used_abbreviation_1 = full_name_of_used_abbreviations_1-->
 
<!--*used_abbreviation_1 = full_name_of_used_abbreviations_1-->
 
<!--*used_abbreviation_2 = full_name_of_used_abbreviations_2-->
 
<!--*used_abbreviation_2 = full_name_of_used_abbreviations_2-->
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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: Phenylalanine Ammonia Lyase
 
<!--*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 ???.-->
Line 49: Line 49:
  
 
'''Enzymatic activity:'''
 
'''Enzymatic activity:'''
−
<!--none/EC-number ?.?.?.?-->
+
EC-number 4.3.1.25
  
 
'''Cytotoxicity:'''<br>
 
'''Cytotoxicity:'''<br>
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'''Organism:'''<br>
 
'''Organism:'''<br>
−
<!--*Genesequence derived from ''Rhodosporidium toruloides''-->
+
*Genesequence derived from ''Rhodosporidium toruloides''-->
 
<!--*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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'''Database references:'''<br>
 
'''Database references:'''<br>
−
<!--*[http://www.ncbi.nlm.nih.gov/nuccore/?accessNr? '''GenBank''': ?title?]-->
+
[http://www.ncbi.nlm.nih.gov/nuccore/AX366866 '''GenBank''': Sequence 18 from Patent WO0208402]-->
−
GenBank : [http://www.ncbi.nlm.nih.gov/nuccore/AX366866 accession no. AX366866]
+
 
<!--*[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/P11544 '''Uniprot''': Phenylalanine/tyrosine ammonia-lyase]
 
<!--*[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 22:29, 26 September 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:

Quality control measures:
Part was totally sequenced

Backbone:
Backbone name: pSB1C3 Resistance: Cp

Protein coding:
Protein: Phenylalanine Ammonia Lyase

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:

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]