Team:Freiburg/3D-Modeling

From 2008.igem.org

Revision as of 22:02, 29 October 2008 by Kristian (Talk | contribs)


Freiburg2008 small header.gif



Home

The Team

Project Report

Parts

Modeling

Notebook

Safety

CoLABoration

_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 scale and two T-Cell-receptors (dimerization model)


Fig.5: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"):
Team-Freiburg2008 Lipo alpha nCFP.pngTeam-Freiburg2008 Lipo alpha link cCFP.png
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

Freiburg08 FT3.png