Ramachandran outlier
From Proteopedia
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Ramachandran outliers are those amino acids with non favorable dihedral angles, and Ramachandran plot is a powerful tool for making those evident. Most of the times, Ramachandran outliers are a consequence of mistakes during the data processing. | Ramachandran outliers are those amino acids with non favorable dihedral angles, and Ramachandran plot is a powerful tool for making those evident. Most of the times, Ramachandran outliers are a consequence of mistakes during the data processing. | ||
| - | However, sometimes, Ramachandran outliers might play a special role in the structure function. See for example the case of Ser-200 in the structure <scene name='76/762493/1ea5_color_sec_struct/3'>1ea5</scene>. Let's draw its <jmol><jmolLink><script>plot ramachandran</script><text>Ramachandran Plot</text></jmolLink></jmol>. | + | However, sometimes, Ramachandran outliers might play a special role in the structure function. See for example the case of Ser-200 in the structure <scene name='76/762493/1ea5_color_sec_struct/3'>1ea5</scene>. Let's draw its <jmol><jmolLink><script>calculate structure;select protein;cartoon only;color structure;plot ramachandran</script><text>Ramachandran Plot</text></jmolLink></jmol>. |
Notice that the residues in <jmol><jmolLink><script>display sheet</script><text>beta sheets</text></jmolLink></jmol> are colored in yellow, the residues in <jmol><jmolLink><script>display helix</script><text>alpha helix</text></jmolLink></jmol> colored in magenta, <jmol><jmolLink><script>display turn</script><text>beta turn</text></jmolLink></jmol> in blue and <jmol><jmolLink><script>display all; hide sheet,helix,turn;</script><text>others</text></jmolLink></jmol> in white. At any time you may <jmol><jmolLink><script>display all</script><text>display all</text></jmolLink></jmol> residues. | Notice that the residues in <jmol><jmolLink><script>display sheet</script><text>beta sheets</text></jmolLink></jmol> are colored in yellow, the residues in <jmol><jmolLink><script>display helix</script><text>alpha helix</text></jmolLink></jmol> colored in magenta, <jmol><jmolLink><script>display turn</script><text>beta turn</text></jmolLink></jmol> in blue and <jmol><jmolLink><script>display all; hide sheet,helix,turn;</script><text>others</text></jmolLink></jmol> in white. At any time you may <jmol><jmolLink><script>display all</script><text>display all</text></jmolLink></jmol> residues. | ||
Revision as of 14:53, 15 August 2017
Ramachandran outlier
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