Assignment I
- Creat a peptide larger than 3 residues
- Display and anotate the backbone atoms
- Highlight or identify the peptide bond
- Identify one or more peptide planes and display its dimensions as shown below:
- Repeat the step 4 for a real
structure obtained from PDB.
- Submit the final pictures
and NOT
the PDB to the dropbox.
Aditional Notes:
To diaplay only residues 2 and 3 of a protein in molmol:
- Make everything invisible
- selectatom 'res.num=2 or res.num=3'
- selectres 'res.num = 2 or res.num = 3'
- selectbond 'res.num = 2 or res.num = 3'
- click ball/stick
To make ball/stick look like above:
- click Atom Rad., set radius to 0.1
- click Bond Rad., set radius to 0.02
To display distances:
- select the two atoms involved in the distance.
- type AddDist
Alternative notation in selectin atoms:
- #molnumber:resnum@atom is another short hand notation for
selecting regions.
- #1:2@CA selects CA of residue 2 of molecule 1.
- #1:2-5@CA,N,H selects CA, N and H of residues 2-5 of molecule 1.
To make a figure:
- Click on plot under File.