Talk:Biochemistry

Index Reorganization
I'm new here but I'm studying this subject at the moment (on a fairly simple A-Level.. level) and I'm taking an exam on it within the next few months. I thought I might be able to make a contribution. Since this book is fairly skeltal at the moment I'd like to suggest an alternative structure, especially since most of the stuff in the introduction section at the moment doesn't seem very introductory:


 * Introduction
 * Macromolecular Structure
 * Proteins
 * Structure
 * Primary Structure
 * ..etc
 * Denaturation
 * Examples
 * Hemoglobin (since it's a protein, and all)
 * Myoglobin
 * Carboyhydrates
 * Monosaccharides
 * Disaccharides
 * Polysaccharides
 * Lipids
 * DNA/RNA structure
 * Differences between the two
 * Enzymes (following on from the protein thing)
 * Catalysis
 * Factors effecting enzyme activity
 * Temperature, concentration, all that stuff
 * Inhibition
 * Metabolism
 * Human
 * sugar metabolism - glycolysis
 * krebs cycle
 * lipid metabolism
 * mitochondrial metabolism
 * alcohol metabolism
 * Plant
 * Yeast / Bacterial
 * Membranes
 * Genetics - use the Genetics book?
 * DNA
 * Replication
 * RNA
 * Protein Synthesis
 * transcription
 * RNA Processing
 * translation
 * Biochemical Methods
 * Spectroscopy
 * X-ray diffraction
 * NMR
 * Genetics
 * Western/Northern/Southern blotting
 * PCR
 * Molecular Biology / Cellular Biochemisry
 * dna damage and repair
 * development
 * cell cycle
 * cell signalling
 * Signal transduction
 * immunology
 * Biochemistry Dictionary ?? just a thought

However, it's most likely others know more than me, so I haven't made any changes yet. Richard 15:33, 6 Apr 2004 (UTC)


 * I think it's time to reorganize the index dramatically. A good index with a good hierarchy would be an optimal startpoint to write articles. I'm beginning to add structure and materials in the Proteins section (since it's "my field"), but I'm not convinced of the actual structure of this WikiBook, both in the abstract and the practical sense. I'm still not so familiar with Wiki and I'm still new here,so I don't feel to redirect and rebuild indexes at my will. Anyway, the Richard catched the point. It's time to work on an index.

Cyclop 12.50, 13 Apr 2004 (UTC)
 * Looking at the index it seems to be more focused on exploring each topic in depth, instead of covering a range as a lecture series might (a series of three lecture classes covering successive levels of content). My lecture series went through
 * General macromolecular overview (the amino acids, proteins made from aa's, (deoxy)nucleotides, DNA/RNA structure, Lipids, carbohydrates), then onto enzymes, different metabolic functions (how enzymes do things faster), then going more in depth with carbs and into metabolism
 * In depth class on DNA, RNA, and the full processes in the central dogma (replication, transcription regulation, transcription, post transcriptional modification, nuclear export in eukaryotes, translational regulation, mRNA turnover, translation, post translational modification),biochemical techniques (both current and historical), and coverage of small non-coding RNA species (rRNA, tRNA, gRNA, snoRNA, siRNA, micro RNA, silencing, etc).
 * In depth class on proteins. Review of previous classes including amino acids, and primary through quaternary structure with added depth. Still in this course so I can't speak for all of the material yet.
 * There's two use cases I think will be most common. A multiple course, in-depth coverage of what amounts to the entire book, or secondly an overview course that just takes bits and pieces out, mostly from the more introductory information. Btharper1221 (discuss • contribs) 23:24, 10 February 2014 (UTC)

Biochem Bookshelf?
Biochemistry is a much bigger topic than I think wikibooks gives it credit for at the moment, can I suggest creating a whole bookshelf for Biochemistry. This would then be able to take advantage of the other books already (being) written such as genetics and immunology. this would then allow us to create books containing logical sections and peripheral subjects of biochemistry. we do seem to be lacking a metabolism, experimental methods, biophysics & energetics, and macromolecular structure & function sections which can be whole books in their own right. This would also stop any unnecessary repetition of the same info again and again, how many of the books in the biology category have genetics sections? Instead of writing a whole book from scratch, why don't we consolidate all the information on biochemistry (or rather the Molecular and Cellular Biology WikiProject) in wikipedia into a single consistent book. Drew

Pymol
I noticed the apparent lack of pictures (or content for that matter) and well I thought it might help to get a few pictures. PyMOL is a molecular imaging program. It can be used to draw protein, DNA, and even water structure. Best of all it's open source and takes images in PNG format. Hope this helps.--Alsocal 06:01, 4 Oct 2004 (UTC)


 * Thanks for mentioning this! I've spent the summer getting to grips with it and it's amazing. :) --81.178.101.159 21:10, 28 August 2005 (UTC)

Hi I would like to work on this book as well
I think this is a really cool idea and I'm excited to work on this book! I am a third year biochemistry student at the University of Vermont, and I think this will be a great way for me to both at once learn and teach biochemistry. Since no one has started on the lipids section, I will start there if no one else is currently working on it. I have never used Wiki Books before, so if you notice any mistakes I may be making, feel free to tell me!

--Brandon 13:12, 23 Jan 2005 (UTC)

Combine Lipids and Membranes
I am going to combine the lipids and membranes chapters, since one naturaly leads into to the other.

I'd like to help too
Like Brandon, I'd like to help out on this book and hoefully when I get some time (after my exams) i'll be able to get some stuff up. Does anyone else think the name of the book 'Biology Biochemistry' sounds a bit strange. Why not simply 'Biochemisty'?

--Donkey 23:51, 18 Apr 2005 (UTC)
 * I agree, "Biology Biochemistry" is redundant and should be changed to "Biochemistry". Any objections? Mike 07:22, August 9, 2005 (UTC)

"energy metabolism" in detail
The chemistry of the main metabolic pathways (Glycolysis, TCA Cycle, NADH dehydrogenase and Electron Transport Chain) should be added. I can volunteer to do this, but I would want to do it one chemical step at a time, which is A LOT of reactions to draw.. I haven't used the program mentioned above but will try it, if anyone has any other suggestions program-wise that would be great. Mike Kascel 07:27, August 9, 2005 (UTC)


 * Hey Mike, if you're talking about PyMOL (as mentioned by Alsocal) then that's a great program for viewing 3D structures of molecules but wont be useful for drawing chemical reactions. For that you'd be better off using a program like ChemDraw or, i think, ISIS draw. I have access to those but don't really know the reactions that would be required. Could someone tell me what sort of things would be required? --81.178.101.159 21:10, 28 August 2005 (UTC)


 * ChemDraw or ISIS draw should be ok for drawing the 2D structures. Luciano

Enzyme/Kinetics
Please be sure to include a section related to Enzyme Kinetics/Kinetics, Michaelis Menton, Vmax, double reciprocal plots, etc.

I see this now, under the the Catalysis section, however it would be prudent to insert information (namely, equations/derivations) and how you get the respective Vmax and Km values. It is an integral part of biochemistry/enzyme catalysis and kinetics. Please include this as you edit your book.

I am involed with a current project in Wikipedia Chemistry, however some time during my studies and outside project I will find time to drop by and read and review your hard work :D Jawz 06:01, 17 January 2006 (UTC)