Difference between revisions of "Task 9 (MSUD)"

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m (Visualization of mutant structures)
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===Visualization of mutant structures===
 
===Visualization of mutant structures===
 
The mutagen tool of PyMOL was used to introduce mutations to the protein structure. Mutations and their neighboring residues are visualized and shown in following figures.
 
The mutagen tool of PyMOL was used to introduce mutations to the protein structure. Mutations and their neighboring residues are visualized and shown in following figures.
<gallery caption="Visualization of mutations in BCKDHA (PDB: 2BFF, all residue positions refer to the reference sequence of BCKDHA)" widths="300" heights="260" perrow=3>
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<gallery caption="Visualization of mutations in BCKDHA (PDB: 2BFF, all residue positions refer to the reference sequence of BCKDHA)" widths="300" heights="240" perrow=3>
 
File:2bff_m82l.png|Local environment of residue 82. Original methionine is replaced by leucine.
 
File:2bff_m82l.png|Local environment of residue 82. Original methionine is replaced by leucine.
 
File:2bff_a222t.png|Local environment of residue 222. Original alanine is replaced by threonine.
 
File:2bff_a222t.png|Local environment of residue 222. Original alanine is replaced by threonine.

Revision as of 12:28, 12 July 2013

Results

Lab journal

For this task we have chosen 5 mutations from HGMD and dbSNP. 2 of them are neutral mutations which do not have functional changes over the protein structure. Following are the 5 mutations:

DatabaseAccession_codeMutationPathogenic
dbSNPrs11549938M82LFalse
dbSNPrs141086188A222TFalse
HGMDCM045934C264WTrue
HGMDCM062448R346HTrue
dbSNPrs61736656I361V False

Visualization of mutant structures

The mutagen tool of PyMOL was used to introduce mutations to the protein structure. Mutations and their neighboring residues are visualized and shown in following figures.

Mutant structures (SCWRL)

Energy comparisons

FoldX

Minimise

Gromacs