IGEM:Harvard/2006/Container Design 4/Schematics

Design details

based on n = 0.324 nm, d = 3.0 nm

Shape	Lid ply	Cylinder design	Lid design	Total scaffold length
honeycomb hexagon	single	30 tubes (29.0 nm dia) x (84+12)bp long (30.8 nm) = 2880bp	14 tubes (34.2 nm) x (84+12)bp long (30.8 nm) = 1344bp each	2880+(2*1344) + (3*200)bp linkers = 6168 bp

ASCII

Lid 1:

000   002   004   006   008   010   012   ...
   001   003   005   007   009   011   013   

Barrel:

...   ...   000   002   004   ...   
  ...   029   001   003   005   ...

   ...   028   ...   ...   006   ...
...   027   ...   ...   ...   007   

...   026   ...   ...   ...   008   
   025   ...   ...   ...   ...   009

   024   ...   ...   ...   ...   010
...   023   ...   ...   ...   011   

...   022   ...   ...   ...   012   
   ...   021   ...   ...   013   ...

   ...   020   018   016   014   ...
...   ...   019   017   015   ...   

Lid 2:

000   002   004   006   008   010   012   ...
   001   003   005   007   009   011   013   

2D

2D Schematics

• 

  Barrel Plus Oligos Plus Aptamers
  (ai file)

• 

  Barrel cross-section
  (ai file)

• 

  Schematic of lid 2 with all aptamers

• 

  cross-section

Face F-A-B inside view

• 

  Back 3 faces (F,A,B) Inside view. Only in-facing aptamers which come off of oligo endpoints.

• 

  Back 3 faces (F,A,B) Inside view. All in-facing aptamers including those looping off oligos.

• 

  Back 3 faces (F,A,B) Inside view. In and Out aptamers which come off of oligo endpoints.

• 

  Back 3 faces (F,A,B) Inside view. All potential aptamers - in and out, including ones looping off oligos.

Face C-D-E Inside view

• 

  Front 3 faces (C,D,E) Inside view. Only in-facing aptamers which come off of oligo endpoints.

• 

  Front 3 faces (C,D,E) Inside view. All in-facing aptamers including those looping off oligos.

• 

  Front 3 faces (C,D,E) Inside view. In and Out aptamers which come off of oligo endpoints.

• 

  Front 3 faces (C,D,E) Inside view. All potential aptamers - in and out, including ones looping off oligos.

Face F-A-B outside view

• 

  Back 3 faces (B,A,F) Outside view, all out-facing aptamers.

• 

  Back 3 faces (B,A,F) Outside view, only out-facing aptamers at ends of oligos.

• 

  Back 3 faces (B,A,F) Outside view, only out-facing aptamers within (ie."looped into") oligos.

Face C-D-E Outside view

• 

  Front 3 faces (E,D,C) Outside view, all out-facing aptamers.

• 

  Front 3 faces (E,D,C) Outside view, only out-facing aptamers at ends of oligos.

• 

  Front 3 faces (E,D,C) Outside view, only out-facing aptamers within (ie."looped into") oligos.

3D

• 

  Barrel Plus Lids
  (ai file)