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BIO464/

 

 

Δομή και λειτουργία

πρωτεινων

 

Διδάσκων: Τάσος Οικονόμου (ΒΙΟ)

Εαρινό εξάμηνο,  Παρασκευή 3-6 μμ

 No Θέμα 
Διάβασμα
Που
Πότε
Διάλεξη 
1

Από την αλληλουχία στη   δομή Ι

 1,2  Αμφι A
13/02
PDF
QT
2
SwissPDBviewer   ComputerLab

11-14

26/02

3
SwissPDBviewer   ComputerLab
 13/03
4
Από την αλληλουχία στη   δομή Ι I  1-2  Αμφι A
20/03
PDF
QT
5
Από την αλληλουχία στη   δομή Ι II  1-4  Αμφι A
27/3
   
6
Από την αλληλουχία στη   δομή Ι V  3, 4, 6, 7  Αμφι A
10/4
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QT
7
Στόχευση  3, 4, 6  Αμφι A
8/5
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8
Non-native proteins-Πρωτεινωματική  3, 4, 6, 7  Αμφι A
15/5
   
Προτεινόμενη Βιβλιογραφία 
Δομές μακρομορίων 
.pdb
1

Branden and Tooze, (1999)

Introduction to Protein structure 2nd edition

(home)

    Ριβόσωμα
 
 
K+-channel
1BL8
2

Petsko and Ringe (2004)

Protein structure and function

(home) (illustrations)

    OmpA
1QJP
SecYEG
1RH5
SecA (+ADP)
1M74
3

Alberts et al, (2002)

Molecular Biology of the Cell 4th edition

(home)

Full-Text online

     
 
 
 
4

Stryer, 2003 Biochemistry 5th edition (home);

Ελληνική μετάφραση 2004 A' τόμος; 2005 Β' Τόμος

Crete University Press

(home Α' Τόμου(home B' Τόμου)

Full-Text online

   
 
   
   
   
5

Pollack, (2001)

Cells and gels and the engines of life

(home)

     
 
   
   
6

Madigan, Martinko and Parker (2003)

Brock Biology of Microorganisms 10th edition (home)

or

Madigan and Martinko (2005)

Brock Biology of Microorganisms 11th edition (home)

   
 
   
   
   
   
7

Alberts et al,2000 Βασικές αρχές Κυτταρικής Βιολογίας.

Εκδόσεις Πασχαλίδης

(home)

       
   

Papers
1. Allison, J. R., Bergeler, M., Hansen, N., & van Gunsteren, W. F. (2011) Current Computer Modeling Cannot Explain Why Two
Highly Similar Sequences Fold Into Different Structures. Biochemistry, 111114101745007. doi:10.1021/bi2015663 [pdf]

2. bacterial protein secretion

3. Mass-spectrometry based proteomics (Khan et al., 2011) [pdf]

4. Domon, B and Aebersold,R. (2006) Mass Spectrometry and Protein analysis. 212; 312 Science [pdf]

5. Intrinsically disordered proteins [pdf]
6. Central dogma at the single-molecule level in living cells [pdf]

Links
Interactive Timeline - 50 Years of Protein Structure Determination
LifeExplorer: a 3D navigation tool for cells
International Proteomics Tutorial Programme - supported by HUPO and EuPA
F.-Ulrich Hartl and Arthur Horwich share the Lasker Basic Medical Science Award for 2011
Animations show how you work at the molecular scale (video) | Cutting Edge - CNET News
Ringe, D., & Petsko, G. A. (2012). Behind the Movement. Cell, 150(6), 1093-1095. doi:10.1016/j.cell.2012.08.031

How to validate your protein structure model-Very nice tutorial for the non-expert http://xray.bmc.uu.se/embo2001/modval/
This practical is intended to introduce a number of publicly available tools that help you assess the reliability of structural models.
Assessing the quality of a model is called validation. Validation is something that needs to be done both by producers (crystallographers,
NMR spectroscopists, electron microscopists, etc.) and users (biologists, enzymologists, medicinal chemists, etc.) of models.
Note that we talk of models rather than structures, since a model is just a simplified representation of a human being's hypothesis of what
a molecule looks like
(a collection of point atoms, often even ignoring hydrogen atoms).""

NEWS
     
Date Title Source
07 November 2011 Scientists pleasantly 'shocked' by skills of Foldit gamers Health Tech - CNET News
18 September 2011 Public Solves Protein Structure The Scientist
16 September 2011 F.-Ulrich Hartl and Arthur Horwich share the Lasker Basic Medical Science Award for 2011 Cell

Ταινίες

 Translation 1 Translation 2  Polyribosomes  Ribosome elongation Ribosome ratchet  K-Channel Glucose Uptake Na-K Pump Carrier proteins
F1F0ATP-synthase Kinesin Myosin TCBG- NIH ElockLab
F1F0 ATPsynthase                

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