1.
Find the following data from its header file:
PDB ID¡G
1BE2
Experimental method¡G
NMR, 10 Structures
Organism (give scientific name) and organ where this protein
come from ¡G
Hordeum vulgare
Location of its four helixs (i.e. Ala12 - Gly20) ¡G
helix 1 (GLY4 - GLY19), helix 2 (GLU26 - GLN37), helix 3 (SER41 - ARG56)
and helix 4 (LEU63 - CYS73)
Positions of its four disulfide bonds ( i.e. Cys3 - Cys24)
¡G
ssbond 1 (CYS3 - CYS50), ssbond 2 (CYS13 - CYS27), ssbond 3
(CYS28 - CYS73) and ssbond 4 (CYS48 - CYS87).
Give the chemical formula of the ligand¡G
C16H32O2.
2.
Show two different views of this protein by Rasmol, one of them
must show its ligand in spacefill display.
3.
Show protein in cartoon with its four disulfide bonds in yellow color.
4.
Measure the bond length of each disulfide bond ( -S-S- ) and calculate
the average bond length of disulfide bond.
Cys3 -> Cys50: 5.2 angstrom, Cys13 -> Cys27: 6.4 angstrom, Cys28 -> Cys73:
5.7 angstrom,
and Cys 48 -> Cys 87: 4.1 angstrom, and the average bond length is 5.35
angstrom.
5. Show
residues in protein that are within 3.0 angstrom of carboxylic
group (COO-) of ligand.