HOMEWORK#5

Protein Data Bank

• due on 4/25

• 1. Please find the 1.9 Å crystal structure of the Aequorea victoria green fluorescent protein (GFP) from PDB. Give the following informations:

                    Ans: 1GFL
 
• b.) Name of the authors.
                    Ans: F. Yang, L.G. Moss, G.N. Philips Junior
 
• c.) Expression system used by authors.
                   Ans:   Escherichia Coli
 
• d.) Residue number
                   Ans: It exsists are dimer  230*2 =460 residue in PDB.
                           Total number of groups 238 (with 8 residue are not in PDB)
 
• e.) Number of helix.
                   Ans: Number of Helices  12 (for dimer)
 
• f.) The starting residue and ending residue of each helix.
                Ans:    Glu   5 - Phe  8
                            Trp 57 - Phe 64
                            Gln 69-  Phe 71
                            Asp 76 - His 81
                             Phe 83 - Ser 86
                             lys 156 - lys 158
 
• g.) Number of b-sheet.
                   Ans : Number of strands 24 (for dimer)
 
• 2. Show three different Rasmol pictures of GFP:
• whatever you like.
               The Picture
• highlight the chromophore by spacefill and green.
               The Picture
• a rotating molecule by GIF builder.
               The Picture

• 3. A blue emission variant of GFP has been made by mutation of two residues. Please find the structure of this blue emission variant. Show its structure and color the two mutated positions blue.

         Two mutants are Y66H and Y145F.  PDB code : 1BFP
 
          The Picture

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PC Lyu