L01 - BIOCHEM 660 – 2103

Web Links

 

SELECT NIGMS (National Institute of General Medical Sciences) BROCHURES http://publications.nigms.nih.gov/

http://publications.nigms.nih.gov/order/

 

THE STRUCTURES OF LIFE:

HTML: http://publications.nigms.nih.gov/structlife/

PREFACE (rev 2007) http://publications.nigms.nih.gov/structlife/preface.html

PDF: http://publications.nigms.nih.gov/structlife/structlife.pdf

E-PUB: http://publications.nigms.nih.gov/epubs/StructuresofLife.epub

 

INSIDE THE CELL:

HTML : http://publications.nigms.nih.gov/insidethecell/

PDF:  http://publications.nigms.nih.gov/insidethecell/pdf/inside_the_cell.pdf

E-PUB: http://publications.nigms.nih.gov/epubs/InsidetheCell.epub

 

MEDICINE BY DESIGN:

HTML: http://publications.nigms.nih.gov/medbydesign/

PDF: http://publications.nigms.nih.gov/medbydesign/medbydesign.pdf

E-PUB: http://publications.nigms.nih.gov/epubs/MedicinesByDesign.epub

 

COMPUTING LIFE:

HTML: http://publications.nigms.nih.gov/computinglife/

PDF: http://publications.nigms.nih.gov/computinglife/computing_life.pdf

E-PUB: http://publications.nigms.nih.gov/epubs/ComputingLife.epub

 

THE CHEMISTRY OF HEALTH:

HTML: http://publications.nigms.nih.gov/chemhealth/

PDF: http://publications.nigms.nih.gov/chemhealth/coh.pdf

E-PUB: http://publications.nigms.nih.gov/epubs/ChemistryofHealth.epub

 

 

Cyrus Levinthal:

http://www.columbia.edu/cu/biology/faculty/chasin/cyrus.html

 

History of Visualization of Biological Macromolecules

http://www.umass.edu/microbio/rasmol/history.htm

 

Early Interactive Molecular Graphics at MIT

http://www.umass.edu/molvis/francoeur/levinthal/lev-index.html

 

MOVIES: Early Interactive Molecular Graphics Movie Gallery

http://www.umass.edu/molvis/francoeur/movgallery/moviegallery.html

 

Evans & Sutherland 1968

http://www.es.com/about_eands/index.asp

 

Tomato Bushy Stunt Virus    |   Art Olson

http://molecularmovies.com/movies/olson_TBSV.mov

(more movies at http://www.molecularmovies.com/showcase/ )

 

BLOG The Crystal-Clear Cell, Simon Bushell, 9 September 2010

http://www.thetwentyfirstfloor.com/?p=1150

 

BraggŐs Law

https://en.wikipedia.org/wiki/Bragg%27s_law

 

Constructive & Destructive waves (YouTube)

https://www.youtube.com/watch?v=ic73oZoqr70

 

NOVA: Secrets of Photo 51 (Rosalind Franklin)

http://www.pbs.org/wgbh/nova/photo51/

http://www.mysciencebox.org/image/rfranklin

 

INTERACTIVE FLASH MOVIES: (SWF files)

Anatomy of Photo 51

http://www.pbs.org/wgbh/nova/body/DNA-photograph.html

 

Franklin's X-ray diffraction, explanation of X-ray pattern.

http://www.dnalc.org/view/15014-Franklin-s-X-ray-diffraction-explanation-of-X-ray-pattern-.html

 

Introduction to X-ray crystallography

Claude Sauter, Strasbourg – France    

http://vimeo.com/7643687 (parts 1,2,3,4 - 17:30 min total)

and / or

http://cj.sauter.free.fr/xtal/home.html

The next 2 videos are unlisted. Only those with the link can see them.

Part 3 (3:31 min):http://www.youtube.com/watch?v=QMUOAf56_7A

Part 4: (3:08 min)http://www.youtube.com/watch?v=AYt1Q6yLsHU

(A 1:30 min excerpt or these 2 videos was shown in class)

 

Stanford Linear Accelerator Center (SLAC) Full movie (5:27 min)

http://www.youtube.com/watch?v=pgaG7f96SKM

(Jump to 4min42sec to see exerpt shown in class)

 

NMR – 2D image of USA as example

http://www.biochem.arizona.edu/classes/bioc585/NMR/LectureSlides/

 

Cryo-EM with 3D reconstruction

http://xfel.desy.de/localfsExplorer_read?currentPath=/afs/desy.de/group/xfel/wof/PM/Meetings/STI_June04/Hajdu.pdf

 

Protein Data Bank: www.rcsb.org or www.pdb.org

 

PDB file format: http://www.wwpdb.org/docs.html#format

 

Looking at Structures: Dealing with Coordinates

http://www.rcsb.org/pdb/101/static101.do?p=education_discussion/Looking-at-Structures/coordinates.html

Short URL: http://bit.ly/Pyhgdb

 

Biological Assemblies and the PDB Archive

http://www.rcsb.org/pdb/101/static101.do?p=education_discussion/Looking-at-Structures/bioassembly_tutorial.html

Short URL: http://bit.ly/N842xQ

 

Methods for Determining Atomic Structures

http://www.rcsb.org/pdb/101/static101.do?p=education_discussion/Looking-at-Structures/methods.html