Home
About BEB
Curriculum
Admission
CNC Research
BEB in the Media
 
 
Structural Biology
 
October 4 - 8
Coordinator: Sandra Ribeiro

COURSE SCHEDULE

Monday (Oct 4)
 
9:30-10:00
Introduction to protein crystallography
 
X. Gomis-Ruth
10:15-11:00
The theory of diffraction
 
U. Baumann
11:15-12:00
The theory of diffraction
 
U. Baumann
14:00-16:00
PRACTICAL 1: PROTEIN CRYSTALLIZATION (Group I – 6 students)
 
P. Pereira
 
PRACTICAL 2: SYMMETRY (Group II – 6 students)
 
S. Ribeiro
16:00-18:00
PRACTICAL 1: PROTEIN CRYSTALLIZATION (Group II – 6 students)
 
PRACTICAL 2: SYMMETRY (Group I – 6 students)
 
P. Pereira
Tuesday (Oct 5)
 
9:30-10:30
PRACTICAL: LASER DIFFRACTION BY TWO DIMENSIONAL LATTICES
 
P. Pereira, S. Ribeiro
10:45-11:30
Phasing strategies
 
X. Gomis-Ruth
11:45-12:30
Model building and refinement
 
U. Baumann
14:00-14:30
DATA COLLECTION VIDEO
 
P. Pereira
15:00-18:00
PRACTICAL 3: DATA PROCESSING AND MODEL BUILDING (Groups I and II)
 
P.Pereira
 
PRACTICAL 4: PDB AND PYMOL (Groups III and IV)
 
S. Ribeiro
Wednesday (Oct 6)
 
9:30-10:00
Protein crystallization: A practical example
 
P. Pereira, C. Almeida
9:30-10:00
Protein crystallization: A practical example
 
P. Pereira, C. Almeida
14:00-17:00
PRACTICAL 3: DATA PROCESSING AND MODEL BUILDING (Groups III and IV)
 
P.Pereira, S. Ribeiro
 
PRACTICAL 4:PDB AND PYMOL (Groups I and II)
 
S. Ribeiro
Thursday (Oct 7)
 
9:30-11:00
Introduction to protein structure comparison
 
F.S. Domingues
10:15-12:45
Introduction to protein structure prediction
 
F. S. Domingues
14:00-18:00
PRACTICAL: STRUCTURAL BIOINFORMATICS (Group I)
 
F. S. Domingues
 
Work on paper presentation (Group II)
20:00
Course Dinner
Friday (Oct 8)
 
9:30-12:45
JOURNAL CLUB
15:00-15:45
SEMINAR: Structural bioinformatics
 
F.S. Domingues
16:00-17:00
SEMINAR: Molecular analysis of metalloproteases and proteins engaged in antibiotic resistance
 
X. Gomis-Ruth

 

Papers for discussion:
 
Crystallography Programs:

1)DENZO”. A Film Processing Program for Macromolecular Crystallography. Otwinowski, Z. and Minor, W.. Yale University, New Haven, CT, USA. 
2) "O" program, T.A. Jones, Dept. Struc. Biol. BMC, Uppsala, Sweeden : http://alpha2.bmc.uu.se 
3)"CNS" program, A.T. Brunger. Dept. of Mol. Biophys. and Biochem., Yale Univ., New Haven, USA. http:// www.mbb.yale.edu 


Recommended books:
1)“Protein Crystallography”, T. Blundell and L. Johnson. Academic Press 1976. 
2)“Methods in Enzymology”, vol 114, 115. Academic Press, 1985 
3) “Preparation and Analysis of Protein Crystals”, A. McPherson, John Wiley and sons, 1982. 
4)“The basics of crystallography and diffraction”, C. Hammond; 2nd Ed, Oxford University Press, New York, 2001. 
5)“Principles of protein crystallography”, J.Drenth, Springer-Verlag, NewYork, 1994. 
6)“Crystal structure analysis: a primer”, J.P.Glusker and K.N.Trueblood, 2nd Ed, Oxford University Press, NewYork, 1985. 
7)“ Crystallography made crystal clear”, G. Rhodes, 2nd Ed., Academic Press, 2000. 


Crystallography on the Web: 
1)International Union of Crystallography: http://www.iucr.ac.uk/welcome.html#it 
2) Protein Data Bank: http://www.rcsb.org/pdb/ 


Protein Crystallography Courses on the Web:  

back
 
© 2017 BEB - Doctoral Programme in Experimental Biology and Biomedicine powered by ponto.C