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462a Home

Jmol Routines and Animations

Jmol Routines

A DNA A RNA Actin
Actinomycin-DNA Alpha Domain Proteins Alpha helix properties and Helical Structures
Alpha/Beta Domain Proteins Antiparallel beta sheet properties Arc Switch Protein
ATP B DNA Base Pairing
Beta Domain Proteins Beta sheet Bilayer structure
Bisphosphoglycerate-deoxy hemoglobin Cholesterol Chloroketone inhibited chymotrypsin
Cytochrome oxidase Disaccharides DNA Minor groove binding
Ethidium Bromide binding to DNA Fatty acids Glycoprotein structure
Gramicidin Hemoglobin-deoxy (T State) Hemoglobin S
Heparin structure Hexokinase HIV Protease
Immunoglobulin-Antigen Immunoglobulin Structure Lectin structure
Lipase Lysozyme Monosaccharides
Myoglobin Myosin Novel domains
Nucleosome Pancreatic trypsin inhibitor Parallel beta sheet properties
Peptide Bond Phosphatidylcholine Phosphoglycerate kinase
Porin Properties of Water Protein domains
Protein structural motifs Protein-DNA Interactions Rhodopsin
RNA-binding (Gln-tRNA) RNA-binding (Sex lethal) RNA-binding (TRAP)
Secondary Structure Representations Serine protease evolution Serine proteases
Sheet_Helix Transition Sidechain Localization Silk
Sphingomyelin tRNA Transcription factors; restriction enzyme
Transmembrane proteins Triosephosphate isomerase Tropomyosin
Troponin C Valinomycin Z DNA
Zymogens Collagen Brazzein
COX 2-NSAIDs Cytc-Cytc Peroxidase Green fluorescent protein (GFP)

Animations

Chromatography

Gel filtration

Phi/Psi rotation

Peptide backbone mobility

Protein folding

Heme movement upon oxygenation

Changes in oxygenation site upon oxygenation

Changes in subunit conformation upon oxygenation

Changes in subunit interface upon oxygenation

Overall conformational change upon oxygenation

Ion pair formation/breaking in hemoglobin T- R transition

Actin Myosin Movement

Carbohydrate mobility in a glycoprotein

Lipid diffusion in a bilayer

Dynamic properties of a bilayer

Flip-flop in a bilayer

 

Biochemistry 462a
http://www.biochem.arizona.edu/classes/bioc462/462a/462a.html
Department of Biochemistry and Molecular Biophysics
The University of Arizona
zieglerm@u.arizona.edu 
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