PyMOL Wiki - User contributions [en]

Mutagenesis

2007-05-01T22:50:57Z

Karineb:

= Mutagenesis =
PyMol has a '''Mutagenesis Wizard''' to make mutagenesis very easy for the end user.

To mutate a residue follow these easy steps:
<OL>
<LI>Load a PDB file 

[[Image:Mutag1.png|180px|none]]
<LI>Under the '''Wizard''' menu select '''Mutagenesis''' 

[[Image:Mutag2.png|180px|none]]
<LI>In the PyMol viewer window select a residue 

[[Image:Mutag3.png|180px|none]]
<LI>Select '''No Mutation''' and select resultant residue 

[[Image:Mutag4.png|180px|none]]
<LI>Selecting the rotamer you think better fits your structure. 

Several side chain orientations (rotamers) are possible. You can use
the back-and-forth movie controls (lower right corner) to display (in white) each of the rotamers available for
this residue in PyMOL, whose current and total numbers are shown in the (green) Frame info. The rotamers
are ordered according to their frequencies of occurrence in proteins, shown as a red percentage at the mutation
object, which exists while mutagenesis is being performed. 

<LI>Select Apply
<LI>Select Done
</OL>

Mutagenesis

2007-05-01T22:50:44Z

Karineb:

Mutagenesis

2007-05-01T22:50:31Z

Karineb:

= Mutagenesis =
PyMol has a '''Mutagenesis Wizard''' to make mutagenesis very easy for the end user.

To mutate a residue follow these easy steps:
<OL>
<LI>Load a PDB file 

[[Image:Mutag1.png|180px|none]]
<LI>Under the '''Wizard''' menu select '''Mutagenesis''' 

[[Image:Mutag2.png|180px|none]]
<LI>In the PyMol viewer window select a residue 

[[Image:Mutag3.png|180px|none]]
<LI>Select '''No Mutation''' and select resultant residue 

[[Image:Mutag4.png|180px|none]]
<LI>Selecting the rotamer you think better fits your structure . \\

Several side chain orientations (rotamers) are possible. You can use
the back-and-forth movie controls (lower right corner) to display (in white) each of the rotamers available for
this residue in PyMOL, whose current and total numbers are shown in the (green) Frame info. The rotamers
are ordered according to their frequencies of occurrence in proteins, shown as a red percentage at the mutation
object, which exists while mutagenesis is being performed.

<LI>Select Apply
<LI>Select Done
</OL>

Mutagenesis

2007-05-01T22:50:13Z

Karineb:

= Mutagenesis =
PyMol has a '''Mutagenesis Wizard''' to make mutagenesis very easy for the end user.

To mutate a residue follow these easy steps:
<OL>
<LI>Load a PDB file 

[[Image:Mutag1.png|180px|none]]
<LI>Under the '''Wizard''' menu select '''Mutagenesis''' 

[[Image:Mutag2.png|180px|none]]
<LI>In the PyMol viewer window select a residue 

[[Image:Mutag3.png|180px|none]]
<LI>Select '''No Mutation''' and select resultant residue 

[[Image:Mutag4.png|180px|none]]
<LI>Selecting the rotamer you think better fits your structure

Several side chain orientations (rotamers) are possible. You can use
the back-and-forth movie controls (lower right corner) to display (in white) each of the rotamers available for
this residue in PyMOL, whose current and total numbers are shown in the (green) Frame info. The rotamers
are ordered according to their frequencies of occurrence in proteins, shown as a red percentage at the mutation
object, which exists while mutagenesis is being performed.

<LI>Select Apply
<LI>Select Done
</OL>