Team:Freiburg/3D-Modeling

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Revision as of 16:45, 29 October 2008

_3D-modeling

DNA-Origami

Planning the input pattern on the DNA-Origami surface, we generated various 3D-models of the huge molecule using "Nano-Engineer", Pymol and SwissPdbViewer (both freeware). Some of those models are shown here to give you an impression of the molecules we have engineered this year.

Fig.1:Some of the oligo nucleotides that shape the single-strand template fused to NIP-molecules and an anti-NIP-Fab-Fragment

Fig.2:DNA-Origami with NIP-molecules and anti-NIP-fragment

Fig.3:Oligo-pattern with scale and two fragments (dimerization model)

Fig.4:Oligo-pattern with NIP-molecules and Fab-fragment, binding accessibility estimation model

Fusion Proteins

The pictures below show models of the fusion proteins our composite parts Bba_K157032 and Bba_K157033 code for (generated with "SwissPdbViewer"):
Fig.5: Red: LipocalinFluA, Grey: "Transmembrane region (BCR, no structural data; symbolized by helix), Blue: left: Split-Cerulean (CFP), N-terminal fragment; right: Split-Cerulean (CFP), C-terminal fragment

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-[[Image:Freiburg08_DNA-NIP.png|thumb|left|380 px|'''Fig.2:'''DNA-Origami with NIP-molecules and anti-NIP-fragment_______]]
+[[Image:Freiburg08_DNA-NIP.png|thumb|left|380 px|'''Fig.2:'''DNA-Origami with NIP-molecules and anti-NIP-fragment]]
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 [[Image:Freiburg08_DNA-NIP5.png|thumb|left|380 px|'''Fig.3:'''Oligo-pattern with scale and two fragments (dimerization model)]]
-[[Image:Freiburg08_DNA-NIP8.png]]
+[[Image:Freiburg08_DNA-NIP8.png|thumb|800 px]]
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