Team:Freiburg Bioware/BioBricks/capsid coding

From 2010.igem.org

Capsid Coding

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-?-NameDescriptionAuthorLength
A  BBa_K404001[AAV2]-Rep-VP123Team Freiburg 20104214
A  BBa_K404002[AAV2]-Rep-VP123_p5-TATAlessFreiburg Bioware 20104386
A  BBa_K404003[AAV2]-Rep-VP123(ViralBrick-587KO-empty)_p5-TATAlessFreiburg Bioware 20104386
A  BBa_K404004[AAV2]-Rep-VP13(ViralBrick-587KO-empty)_p5-TATAlessFreiburg Bioware 20104402
A  BBa_K404005[AAV2]-Rep-VP23(ViralBrick-587KO-empty)_p5-TATAlessFreiburg Bioware 20104402
A  BBa_K404006[AAV2]-VP123Freiburg Bioware 20102208
A  BBa_K404007pCMV_[AAV2]-VP123Freiburg Bioware 20102998
A  BBa_K404008[AAV2]-VP1Freiburg Bioware 20102202
A  BBa_K404009pCMV_[AAV2]-VP1Freiburg Bioware 20102910
A  BBa_K404010[AAV2]-VP2Freiburg Bioware 20101830
A  BBa_K404011pCMV_[AAV2]-VP2Freiburg Bioware 20102500
A  BBa_K404012[AAV2]-VP3Freiburg Bioware 20101635
A  BBa_K404013pCMV_[AAV2]-VP3Freiburg Bioware 20102305
A  BBa_K404150[AAV2]-VP23 Freiburg Bioware 20101917
A  BBa_K404151[AAV2]-VP23 (ViralBrick-587KO-Empty) Freiburg Bioware 20101917
A  BBa_K404152[AAV2]-VP1up Freiburg Bioware 2010411
A  BBa_K404153[AAV2]-NLS Freiburg Bioware 201021
A  BBa_K404154pCMV_Z-EGFR-1907_[AAV2]-VP23 (ViralBrick-587KO-Empty) Freiburg Bioware 20102767
A  BBa_K404155pCMV_Z-EGFR-1907_Short-Linker_[AAV2]-VP23 (ViralBrick-587KO-Empty) Freiburg Bioware 20102785
A  BBa_K404156pCMV_Z-EGFR-1907_Middle-Linker_[AAV2]-VP23 (ViralBrick-587KO-Empty) Freiburg Bioware 20102797
A  BBa_K404157pCMV_Z-EGFR-1907_Long-Linker_[AAV2]-VP23 (ViralBrick-587KO-Empty) Freiburg Bioware 20102809
A  BBa_K404158pCMV_Z-EGFR-1907_SEG-Linker_[AAV2]-VP23 (ViralBrick-587KO-Empty) Freiburg Bioware 20102881
A  BBa_K404159pCMV_CFP_Middle-Linker_[AAV2]-VP23 (ViralBrick-587KO-Empty) Freiburg Bioware 20103337
A  BBa_K404160pCMV_His-Tag_Middle-Linker_[AAV2]-VP23 (ViralBrick-587KO-Empty) Freiburg Bioware 20102641
A  BBa_K404161pCMV_DARPin-E01_Middle-Linker_[AAV2]-VP23 (ViralBrick-587KO-Empty) Freiburg Bioware 20103082
A  BBa_K404162pCMV_Z-EGFR-1907_Middle-Linker_[AAV2]-VP23 (ViralBrick-587KO-BAP) Freiburg Bioware 20102857
A  BBa_K404163pCMV_Z-EGFR-1907_Middle-Linker_[AAV2]-VP23 (ViralBrick-587KO-His-Tag) Freiburg Bioware 20102830
A  BBa_K404164pCMV_VP1up_NLS_Z-EGFR-1907_[AAV2]-VP23 (ViralBrick-587KO-Empty) Freiburg Bioware 20103211
A  BBa_K404165pCMV_VP1up_NLS_mVenus_[AAV2]-VP23 (ViralBrick-587KO-Empty) Freiburg Bioware 20103751
A  BBa_K404166pCMV_VP1up_NLS_His-Tag_[AAV2]-VP23 (ViralBrick-587KO-Empty) Freiburg Bioware 20103056
A  BBa_K404167pCMV_VP1up_NLS_mVenus_VP23(ViralBrick-587-KO-BAP)Freiburg Bioware 20103811
A  BBa_K404168pCMV_VP1up_NLS_mVenus_VP2/3(ViralBrick-587-KO-His)Freiburg Bioware 20103784
A  BBa_K404204ViralBrick-453-Z34C Freiburg Bioware 2010165
A  BBa_K404206ViralBrick-587-His-Tag Freiburg Bioware 2010105
A  BBa_K404210ViralBrick-587KO-Empty Freiburg Bioware 201072
A  BBa_K404222[AAV2]-Rep-VP123_P5-TATAless (ViralBrick-453-His-Tag) Freiburg Bioware 20104410
A  BBa_K404223[AAV2]-Rep-VP123_p5-TATAless (ViralBrick-453-RGD) Freiburg Bioware 20104419
A  BBa_K404224[AAV2]-Rep-VP123_P5-TATAless (ViralBrick-453-Z34C) Freiburg Bioware 20104488
A  BBa_K404225[AAV2]-Rep-VP123_P5-TATAless (ViralBrick-587-BAP) Freiburg Bioware 20104446
A  BBa_K404227[AAV2]-Rep-VP123_P5-TATAless (ViralBrick-587-RGD) Freiburg Bioware 20104428
A  BBa_K404229[AAV2]-Rep-VP123_P5-TATAless (ViralBrick-587KO-BAP) Freiburg Bioware 20104446
A  BBa_K404232[AAV2]-Rep-VP123_P5-TATAless (ViralBrick-587KO-RGD) Freiburg Bioware 20104428
A  BBa_K404234[AAV2]-Rep-VP123_P5-TATAless (ViralBrick-587KO-Z34C-Spacer) Freiburg Bioware 20104503
A  BBa_K404235[AAV2]Rep-VP123_p5TATAless (ViralBrick 453 Z34C-587 HSPG-KO)Freiburg Bioware 20104488
A  BBa_K404236[AAV2]Rep-VP123_p5TATAless (ViralBrick 453 RGD-587 HSPG-KO)Freiburg Bioware 20104419
A  BBa_K404241pCMV_[AAV2]VP123 (ViralBrick-453-BAP) Freiburg Bioware 20103049
A  BBa_K404242pCMV_[AAV2]VP123 (ViralBrick-453-His-Tag)Freiburg Bioware 20103022
A  BBa_K404243pCMV_[AAV2]VP123 (ViralBrick-453-RGD)Freiburg Bioware 20103031
A  BBa_K404244pCMV_[AAV2]VP123 (ViralBrick-453-Z34C) Freiburg Bioware 20103100
A  BBa_K404246pCMV_[AAV2]-VP123ex (ViralBrick-587-BAP)Freiburg Bioware 20103058
A  BBa_K404247pCMV_[AAV2]-VP123ex (ViralBrick-587-His-Tag)Freiburg Bioware 20103031
A  BBa_K404248pCMV_[AAV2]-VP123ex (ViralBrick-587-RGD)Freiburg Bioware 20103040
A  BBa_K404250pCMV_[AAV2]-VP123ex (ViralBrick-587-Beta-lactamase)Freiburg Bioware 20103787
A  BBa_K404251pCMV_[AAV2]-VP123ex (ViralBrick-587KO-BAP)Freiburg Bioware 20103058
A  BBa_K404252pCMV_[AAV2]-VP123ex (ViralBrick-587KO-Empty)Freiburg Bioware 20102998
A  BBa_K404253pCMV_[AAV2]-VP123ex (ViralBrick-587KO-His-Tag)Freiburg Bioware 20103031
A  BBa_K404254pCMV_[AAV2]-VP123ex (ViralBrick-587KO-RGD)Freiburg Bioware 20103040
A  BBa_K404255pCMV_[AAV2]-VP123ex (ViralBrick-587KO-Z34C)Freiburg Bioware 20103100
A  BBa_K404256pCMV_[AAV2]-VP123ex (ViralBrick-587KO-Z34C-Spacer)Freiburg Bioware 20103115
A  BBa_K404314DARPin-E01 Freiburg Bioware 2010459




Basic Capsidcoding Constructs

The category of basic capsid coding constructs contains different BioBricks that can be used to produce different kinds of viral therapy vectors. All of these constructs are compatible to the ViralBrick standard and can therefor be modifyed in a single cloning step to contain functional peptide in the major surface exposed loops.

The Basic Capsid Coding Parts

  • [AAV-2]-Rep-VP123_p5-TATA-less is the main capsid coding plasmid.
  • pCMV_[AAV-2]-VP123 is ment for co-transfections aiming to produce mosaic viruses.
  • pCMV_[AAV-2]-VP13 and pCMV_[AAV-2]-VP13 are ment for co-transfections when using N-terminal fusion.
  • pCMV_[AAV-2]-VP1, pCMV_[AAV-2]-VP2 and pCMV_[AAV-2]-VP3 are constructs code for only one of the three viral coat proteins and can be used to produce the viral coat portein, to purify them and to perform InVitro assembly of the viral shell.




ViralBricks for Loop replacement

ViralBricks are short nucleotide sequences derived from the gene of the viral coat proteins VP1-3 where they encode the two major surface exposed loops around the positions 453 and 587. Functional peptides are integrated in the loop tip which will be present on the surface of viral vectros that have been modified with the corresponding ViralBrick.

Different ViralBrick versions:


Different functional motifs:





Versions of the Rep-Vp123_p5-TATA-less

The construct [AAV-2]-RepVP123_p5-TATA-less is the construct that is cloned from an AAV2 Helper-free System which is derived from the genome of the Adeno-associated Virus in which the ITRs were removed. The expression of the eight gene products is regulated by three promoters. The p40 regulates the expression of the viral coat proteins and the AAP whereas the promoters p5 and p19 regulate the expression of the Rep proteins that are important for the production of the vector plasmid and the packaging. The usage of a TATA-less p5 promoter that is located downstream of the open reading frames favoures the production of the short Rep variants over the long ones which is conductive for the production of viral vectors.




Versions of the pCMV_Vp123

The different versions of pCMV_VP123 are ment for the production of mosaic viruses by transfecting this plamid together with [AAV2]-Rep-VP123_P5-TATA-less. The composite part pCMV_VP123 contains the ORF of the Viral Coat Proteins VP123 under the control of the control of the Cytomegalovirus promoter. By providing modified and unmodified viral coat proteins the resulting viral vector will be a chimera. The ratio of modified to unmodified viral coat proteins will depend on the number of plasmids a cell was transfected with and has impect on the functionality of the viral vector.