Smiling with S.M.I.L.E.S :)

Assalamualaikum. 

Today, we're going to talk about SMILES.
.
.
.

Uh. No. Not that smile.

Cute. But still, not even that close.

What I mean by SMILES here is 

simplified molecular-input line-entry system.

Read on to know more :)

The term canonical SMILES refers to

the version of the SMILES

specification that includes rules 

for ensuring that each distinct chemical molecule

has single unique SMILES representation.

While the term Isomeric SMILES refers

to the version 

of the SMILES specification

that includes extensions

to support the specification 

of isotopes, chirality,and configuration

about double bonds.


For your information dear readers, SMILES supports all elements in the periodic table, and, an atom is 
represented using its respective atomic symbol. 


When using SMILES, single bonds are the default and therefore need 
not be entered. For example, 'CC' would mean that there is a 
non-aromatic carbon attached to another non-aromatic carbon by a
 single bond, and the computer would identify the structure as the 
chemical ethane. 

Here's a table of some SMILES bonds:

single	-
double	=
triple	#
aromatic	:

So we can conclude that SMILES is generally considered to have the 

advantage of being slightly more human-readable. :) Wow.  

And for more info, here's the link of a website that clearly explains 

what SMILES is : Smile and Click Here! :D

Here's a few examples of drawing using SMILES by CHEMSKETCH!

Refer earlier posts for info on Chemsketch.:)

and...

Yes. That's all for now. 

Until we meet again~

Salam alaik :)

~PDB & Rasmol~

Assalamualaikum :)

We meet again!

Today, Madam Linda introduced to the class two new things that seemed very alien-like to us CTS students. 

PDB and RasMol. 

Yes. Together we wonder what these two could possibly mean. 

Actually, PDB stands for Protein Data Bank; a repository for the 3-D structural data of large biological molecules, such as proteins and nucleic acids.The PDB is overseen by an organization called the Worldwide Protein Data Bank, wwPDB.

The PDB database is updated weekly, mind you, and as of 6 March 2012, the breakdown of current holdings is as follows :) 

Experimental Method	Proteins	Nucleic Acids	Protein/Nucleic Acid complexes	Other	Total
X-ray diffraction	65361	1343	3215	2	69921
NMR	8148	970	186	7	9311
Electron microscopy	283	22	104	0	409
Hybrid	42	3	2	1	48
Other	140	4	5	13	162
Total:	73974	2342	3512	23	79851

Credit to the amazing wikipedia for such useful and quick information. 

But what is RasMol? 

   RasMol is a computer program written for molecular graphics visualization intended and used primarily for the depiction and exploration of biological macromolecule structures, such as those found in the Protein Data Bank mentioned above.

Historically, it was an important tool for molecular biologists since the extremely optimized program allowed the software to run on (then) modestly powerful personal computers.

RasMol is free, (wow) , so here's the link for free downloading: Click me!

Both of PDB and RasMol contributes largely to the development of science in our world. :D

In our last class, we made use of RasMol and came up with some pictures of protein :)

The first one is... Collagenase!

And below is subtilisin: 

Thirdly, kexin: 

Last but not least, signal peptidase: 

So we've come to the end of another post. 

Till we meet again!

:D

Assalamualaikum

The Amazing Chemsketch! :D

Assalamualaikum..=P

Nice to meet all of you all again!

Have you ever heard of Chemsketch?

Ta-daa!

Surely not all of you have heard of it.

Read on to know more...=)

ChemSketch is about the basics of 

structure drawing,
which occurs 

only in Structure Mode.It gives

the overview of the
chemical drawing features.
It is awesome-ly useful in designing pictures
of apparatus,
chemical molecules and lots more.


In order for you to work
efficiently in drawing,
you need to know some basic features of drawing
in this software:

Title bar	Shows the name of the program and the name of the currently open file
Menu bar	Contains a series of words. Each word links to a list (‘menu’) of related commands for working in the ChemSketch window in Structure mode
ChemBasic toolbar	Optional and contains Goodies  or other ChemBasic applications
Color Palette	Allows you to quickly color atoms  and bonds in the selected chemical structures

Here's what we've drawn using the marvelous Chemsketch:

 Energy of Reaction Diagram

 Different Kinds of Orbitals 

Vacuum Distillation Apparatus 

Two-chain DNA Strand 

Lipids and Micelles 

That's all~

And if you are intested, click here ---> download for free :D

Thanks for reading!

Salam :)

anything, contact us here :


ifrah:
ifrah's link! :)


raihana:
Raihana's link! :P


rosnani:
rosnani's link! :D

Our Corner :) -Part 2

the owners	the interest	the life's mission
ifrah	marshmallows	honeymooning in Pulau Jeju
raihana	Chocolate	Get a Porsche
Rosnani	Vanilla	Establish my own company

Our Corner :)

Assalamualaikum :)
Welcome to our little blog. And here's the line up of the blog owners :


Firstly,
this is Nurul Ifrah. 

She's from Temerloh, Pahang and loves marshmallows!

Secondly, meet Raihana.

Selangor-born and loves chocolate :D


Last but not least, here's Rosnani.

A Kelantanese and a vanilla lover.


The three of us are CTS programme students at IIUM Kuantan Campus. 
And counting sadly for our four year study to quickly pass. 


:) Happy reading!