Difference between revisions of "Part:BBa K801999:Design"

(→‎Design Notes)
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===Design Notes===
 
===Design Notes===
  
−
'''Other versions of this BioBrick:'''
+
'''Related BioBrick:'''
−
<!--*The BioBrick Bba_??? encodes ???.-->
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<!--*Other versions:[https://parts.igem.org/wiki/index.php?title=Part:BBa_?????? BBa_??????: Name_of_part] -->
 +
<!--*Related BioBricks:[https://parts.igem.org/wiki/index.php?title=Part:BBa_?????? BBa_??????: Name_of_part]
  
 
'''Cloning details:'''<br>
 
'''Cloning details:'''<br>
−
<!--*Part was designed in RFC10/RFC23/RFC25-->
+
<!--*Designed in RFC10/RFC23/RFC25-->
 
<!--*Mutation C889G to delete XbaI restriction site-->
 
<!--*Mutation C889G to delete XbaI restriction site-->
−
<!--*Truncation upstream/downstream compared to template in order to ???-->
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<!--*Truncation upstream/downstream compared to template, ?explanation?-->
  
 
'''Quality control measures:'''<br>
 
'''Quality control measures:'''<br>
−
<!--*Test-digestion using ?enzyme1? & ?enzyme2?/Not yet performed-->
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<!--*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-->
  
 
'''Backbone:'''<br>
 
'''Backbone:'''<br>
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'''Source:'''<br>
 
'''Source:'''<br>
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<!--*Amplified from commercial system: plasmid name, system name, company name-->
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<!--*Commercial system: plasmid name, system name, company name-->
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<!--*Amplified from plasmid: p???, provided by ?name_of_person?, ?institute/university?, ?country?-->
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<!--*Plasmid: p???, provided by ?name_of_person?, ?institute/university?, ?country?-->
 
<!--*Preexisting BioBrick ?Bba_number?-->
 
<!--*Preexisting BioBrick ?Bba_number?-->
 
<!--*cDNA Clone: ?clone_name?, ?company_name?-->
 
<!--*cDNA Clone: ?clone_name?, ?company_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/?PMID? '''Pubmed:''' ?Author(s)?, ?year?: ?title?]-->
−
<!--*[http://www.ncbi.nlm.nih.gov/pubmed/?PMID? '''Pubmed''': ?Author(s)?, ?year?: ?title?]-->
 
  
−
'''Sequence references:'''<br>
+
'''Database references:'''<br>
 
<!--*[http://www.ncbi.nlm.nih.gov/nuccore/?accessNr? '''GenBank''': ?title?]-->
 
<!--*[http://www.ncbi.nlm.nih.gov/nuccore/?accessNr? '''GenBank''': ?title?]-->
 
<!--*[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/?accessNr? '''Uniprot''': ?title?]-->
 
<!--*[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?]-->
−
'''Structure reference:'''<br>
+
<!--*[http://www.brenda-enzymes.info/php/result_flat.php4?ecno=?accessNr? '''Branda:''' ?title?]-->
−
<!--*[http://www.rcsb.org/pdb/explore/explore.do?structureId=?accessNr? '''PDB:''' ?tile?]-->
+
−
 
+
  
  

Revision as of 01:12, 22 September 2012

Test page for standardized BioBrick part descriptions


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


Keywords:


Abbreviations:

Design Notes

Related BioBrick:

Quality control measures:

Backbone:

Protein coding:

Enzymatic activity:

Cytotoxicity:

Safety notes

Intellectual property:

Contact information:

Source

Source:


Organism:


References

Literature references:

Database references:


TUM12-Test page1.png


Test page for standardized BioBrick part descriptions


Keywords: fluorescent, reporter, chromophore, luminescence, bioluminescence, photoprotein


Used abbreviations:

  • GFP = Green Fluorescent Protein

Design Notes

Other versions of this BioBrick:

  • The BioBrick BBa_I757008 encodes a yellow fluorescent protein (mVenus) derived from GFP
  • The BioBrick BBa_I757008 encodes GFP in RFC25 for protein fusions

Cloning details:

  • Part was designed in RFC10
  • Mutation G381A to delete XbaI restriction site
  • The correctness of the part was checked by sequencing

Protein coding:

  • Green Fluorescent Protein [Nucleotide 1 to 714]
  • The protein has the amino acid replacements Ser65Thr in order to increase fluorescence, photostability and to shift the major excitation peak to 488 nm. (see Heim et al., 1995)
  • The protein encoded is posttranslationally modified by a cross-link between Ser65 and Gly67 to form the chromophore.

Enzymatic activity: none

Cytotoxicity: none

Source

Source:

  • Amplified from plasmid: pSB1C3-GFP-generator, provided by Osamu Shimomura, Boston University School of Medicine, USA

Forward Primer:
5'- ATGATGATGATG - 3'
Reverse Primer:
5'- ATGATGATGATG - 3'

Organism:

  • Sequence derived from Aequorea victoria
  • Codon optimized for Escherichia coli

References

Literature references:

  • [http://www.ncbi.nlm.nih.gov/pubmed/20010584 Pubmed: Prasher, 1995: Using GFP to see the light.(Review)]
  • [http://www.ncbi.nlm.nih.gov/pubmed/7854443 Pubmed: Heim, 1995: Improved green fluorescence.(Reference for Chromophore)]

Sequence references:

  • [http://www.ncbi.nlm.nih.gov/nuccore/X83959.1 GenBank: A.victoria mRNA for green fluorescent protein (ID:gfp1)]
  • [http://www.ebi.ac.uk/interpro/IEntry?ac=IPR011584 Interpro: Green fluorescent protein-related ]
  • [http://www.uniprot.org/uniprot/P42212 Uniprot: Green fluorescent protein]
  • [http://pfam.sanger.ac.uk/family/PF01353 Pfam: Green fluorescent protein]

Structure reference:

  • [http://www.rcsb.org/pdb/explore/explore.do?structureId=1EMA PDB: Green Fluorescent Protein from Aequorea victoria]