1. Search human Mlh1 or its homologous proteins in Protein Data Bank (PDB)
database. You just need to search for protein structure, do not find complex
structure. Give its (a) ID number, (b) Name of the molecule, (c) experimental
method for structure determination and (d) Resolution of the structure.
Ans: (a)1BKN ; (b)Crystal Structure Of An N-Terminal 40Kd Fragment Of E. Coli
DNA Mismatch Repair Protein Mutl ;
(c)X-ray Diffraction ; (d)2.90A see more......
2. Show its structure in ribbons form (400x400).
3. Give the structural informations of this PDB file (a) number of protein
chains, (b) number of helix in one protein chain, (c) the first and last residues
in the helix 6 .
Ans: (a) 2 ; (b) 9 and 8 ; (c) K and C see more......
4. Give the Class, Fold, Superfamily and Family of this protein in Structural
Classification of Proteins (SCOP).
Ans:
Protein: DNA mismatch repair protein MutL from Escherichia
coli [d.122.1.2]
Protein: DNA mismatch repair protein MutL from Escherichia
coli [d.14.1.3]
5. (a) Show Ramachandran plot for this PDB file. (b) How many residues are
in the most favoured regions of Ramachandran plot?
Ans:
(a)Ramachandran plot ; (b)over 90%
