Bioinformatics Education Dissemination: Reaching Out, Connecting and Knitting-together

Molecules

Trp Cage

The Trp Cage sticks model, created at the Summer Modeling Institute, shows the backbone and important side chains and hydrogen bonds. Color-coding is non-standard but very appropriate for the physical model.

The space-filling Trp Cage model (also produced at the Summer Modeling Institute) shows all the atoms in the structure, including the hydrogen atoms. Since there are only 304 atoms in the structure, this representation translates into a physical model where the role of specific hydrogens in the hydrophobic interactions and hydrogen bonding can be clearly identified and perceived.

 

This Trp cage model shows hydrophobic/hydrophilic regions, the tryptophan indol ring is colored in yellow to emphasize its position. Created with Cn3D.

 

 

Explore 3-D TRP Cage Molecules

The Center for BioMolecular Modeling (CBM), located at the Milwaukee School of Engineering, uses rapid prototyping technology to produce accurate, three-dimensional physical models of proteins and other biomolecules useful in both the research laboratory and in secondary and post-secondary science classrooms. The Trp Cage models were created at the Summer Modeling Institute 2003. Hosted by the CBM, this three-day workshop at the Milwaukee School of Engineering taught participants to create 3D physical models of macromolecules by rapid prototyping. The event was organized and hosted by Tim Herman, Mike Patrick, and Jackie Roberts.

Extendin-4

PDB ID: 1JRJ
Classification: Hormone/ Growth Factor
Source: Synthetic Construction
39 residues, 295 atoms.

Image created using SwissViewer.

 

For more information on Exendin-4, visit Amylin Pharmaceuticals.

 

 

GLP-1

Glucagon-like Peptide-1
PDB ID: 1D0(zero)R
Classification: Hormone/Growth Factor
Source: Homo sapiens
30 residues, 234 atoms

Find m ore information on GLP-1 at Glucagon.com, the Web site devoted to the study of the glucagon-like peptides.

Image created with PyMOL.

 

Methuselah

Methuselah ectodomain
PDB ID: 1FJR
Classification:
Signaling Protein
Source: Drosophila melanogaster
390 residues, 3369 atoms

Image created with PyMOL.

For more information on the Methuselah ectodomain, visit the Society for Developmental Biology.

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