Backbone representations: Difference between revisions
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Now lets look at a <scene name='59/599354/Domain/1'>small protein domain</scene> ([[1pgb]]). This domain contains the alpha helix used above, but also contains a small beta sheet made of four beta strands, plus loops (regions that are neither alpha helix nor beta strand) connecting the helices and strands. The helices and strands are represented as ribbons, while the "ropes" connecting them are smoothed backbone traces. This type of representation is properly called a '''secondary structure schematic''', but is called a '''cartoon''' in [[Jmol]] and its family of ancestral visualization programs ([[RasMol]], [[Chime]]). '''Arrowheads''' point towards the carboxy terminus. | Now lets look at a <scene name='59/599354/Domain/1'>small protein domain</scene> ([[1pgb]]). This domain contains the alpha helix used above, but also contains a small beta sheet made of four beta strands, plus loops (regions that are neither alpha helix nor beta strand) connecting the helices and strands. The helices and strands are represented as ribbons, while the "ropes" connecting them are smoothed backbone traces. This type of representation is properly called a '''secondary structure schematic''', but is called a '''cartoon''' in [[Jmol]] and its family of ancestral visualization programs ([[RasMol]], [[Chime]]). '''Arrowheads''' point towards the carboxy terminus. | ||
* | *A <scene name='59/599354/Domain/10'>useful way of coloring</scene> such a ribbon representation is with a spectral sequence of colors from the amino (N) terminus to the carboxy (C) terminus. (Proteins are synthesized by adding amino acids to the C terminus.) This color scheme is called '''N->C Rainbow'''. Notice how the arrowheads point towards the C terminus. | ||
{{Template:ColorKey_N2CRainbow}} | |||
*Next, lets <scene name='59/599354/Domain/2'>color by secondary structure</scene>: | |||
{{Template:ColorKey_Helix}}, | {{Template:ColorKey_Helix}}, | ||
{{Template:ColorKey_Strand}}, | {{Template:ColorKey_Strand}}, | ||
