CHEMSKETCH!

WHAT IS CHEMSKETCH?

Chemsketch is a software application that is used for drawing in chemistry. It is easier to use this software as it is specialized to draw any structure,tables,molecules, and many more that you might need to study chemistry.

HOW TO DOWNLOAD CHEMSKETCH?

you can download the freeware version at this link> FOR FREEWARE VERSION AT ACDLABS.

WHICH ONE IS THE APPLICATION IN THE FOLDER? 

Choose the ‘CHEMSK’ with ‘Application’ as the file’s type,about ‘7113KB’ in size.

HOW TO USE THE CHEMSKETCH?

to be easier and for short,you have to read the tutorial that is provided  with the freeware version of the chemsketch that you have downloaded.

Here is only some of the basic things that you need to know.

You may perform several actions during your work with this software; the following specific words are used to describe them: 

Point to	means move the mouse pointer  to an item
Click	means point to an item, and press the left mouse button
Right-click	means point to an item, and press the right mouse button
Double-click	means point to an item, and quickly press the left mouse button twice.
Drag	means point to an item, and press and hold down the left mouse button while you move the item.
Select	means highlight or make an interface element active either by clicking it or dragging over it (other actions are possible if specified in documentation).  If used in "select the check box", it means that the check box should be marked with a tick (as opposed to "clear the check box" when the check box should be cleared, without a mark).

There are so many things that you can do in chemskecth. Many provided basic structure that you need to draw is available . For example, 
in ‘Template Window’ it have,
1.Alkaloids,
2.Carbohydrates,
3.DNA/RNA Kit,
4. Lab Kit,
5. Newman Projections,
6. Orbitals, Phosphorus Compounds, 
7.Steroids,
8. Sugar: alfa-D-Pyr 
9.Turpenes.

For further information,it is very useful to read the tutorial very carefully. Or else,you will find it very difficult to used it. Hehe…(from my experience as the first time user ^_^ )

simplified molecular-input line-entry system (SMILES)

Ooops, it's not this kind of smile, heeee

Assalamualaikum :-]

After those PDB and HTML, now, we will introduce to all of you about simplified molecular-input line-entry system or simply (SMILES).

SMILES is a specification in form of a line notation for describing the structure of chemical molecules using short ASCII strings.

SMILES notations are comprised of atoms (designated by atomic symbols), bonds, parentheses (used to show branching), and numbers (used to designate ring opening and closing position.

1) atoms:
      atoms are represented by their atomic symbols such as C for carbon, N for nitrogen, Cl for Chlorine and etc. For exmples :
Compound           Molecular Formula          SMILES Notation
---------                ----------------                ---------------
Ethylene                    CH2=CH2                           C=C
Propylene               CH2=CH-CH3                      C=CC
2-Butene              CH3-CH=CH-CH3                CC=CC

2) bonds:
     the four basic bonds are single, double, triple and aromatic bond. Single bond can be shown by the hyphen symbol "-" but usually it is not shown. Meanwhile, triple bond is designated by the symbol "#".

Compound         Bond                      SMILES Notation
-------------    -----------               ---------------------
Ethylene            single & double                  C=C
Propylene          single & double                 C=CC
Acetylene          triple                                  C#C
Propyne            triple                                  C#CC

There is no designation for aromatic ring. It is simply being shown by the lower case letter of atomic symbols. For instance in benzene ring:

SMILES notation for benzene is c1ccccc1
The use of the numbers as ring opening and closing positions is discussed in section 4.






3) branches
      the SMILES notation for branches compound is shown by parentheses. As an example:
             
4) cyclic structure
      here numbers 1 through 9 are used to indicate the starting and terminating atoms. There are some rules need to be followed:
    a. The SAME number (1, 2, 3, etc.) is used to indicate the starting and terminating atom for each ring. The starting and terminating atom must be connected to each other!

    b. Each number that is used (1, 2, 3, etc.) MUST appear twice and ONLY twice in the entire SMILES notation. 
 
    c. A starting or terminating atom can be associated with two consecutive numbers. For example, naphthalene can be coded as: c12ccccc1cccc2 (see the example below). The "12" following the first carbon indicates that the first carbon is connected to both of the following numbered carbons.


                                

Table below shows the all of the SMILES notation:

Aspects	SMILE Notations
Atoms	Atomic symbols
Bonds	single    "-" double  "=" triple     "#"
Branches	parentheses, ( )
Cyclic Structure (opening and closing)	Numbers 1 to 9

 References : http://esc.syrres.com/esc/docsmile.htm

                    Wikipedia

            

Try it and keep smiling C=

A Peak into XML

IRREPLACEABLE XML

Assalam 'Alaik..
Peace upon to all of you..

Now, it's time for you to learn something new, (because we have learnt it, and we wanted you to know :) ).

XML represents the Extensible Markup Language as the markup language that define the rules that encoding document, which is both human readable and machine-readable.

While HTML is designed to display data which mainly focus on how the data would look, the XML is designed to be the software, or the independent tool to transport and store data, which basically focus on what data is.



The table below simplifies the differences between the HTML and the XML.

XML	HTML
Case sensitive	Case insensitive
Custom tags can                      be defined	Has it own             predefined tags
Transport data    between the application           and the database	Use for designing             a web-page

<note> is the root element, while (to, from, heading, and body) is the elements of the root element.
And the last line of </note> indicates that this is indeed a note from Nick to Jonas.


From the note above, it is quite descriptive note, as the tags written can be "invented" by anyone, even you yourself. It's up to you what would like to write down to structure your own document. XML is used to carry information, after all. :)


Thus, all elements can have text content and attributes.

Which basically means that the figure above comprises everything in one book, and that the XML shows the details behind it, with "book store" becomes the root element, and "book" has 4 children of "title", "author", "year", and "price".

Another point to noted, is that in each attribute, the value must be quoted for the XML document does not going to be a syntax error.

These are the other XML Syntax Rules for you to look up. :)

For further reference, it is advisable that you try to learn from mistakes and make many trial-and-errors, because it was a fun learning, that we can add anything we want. 

Thanks for stopping by, anyway ^___^

First Day in IIUM Kuantan

 "EMPOWERING THE AMBASSADOR FOR MUSLIM'S SURVIVAL"

Main entrance of IIUM Kuantan

Assalamualaikum.

'Alhamdullilah, finally I managed to make my dream a reality.' - Ani

'Just like a dream come true, I'd able to step into the gate of Garden of Knowledge and Virtue.' - Siti

'It was a very hectic day, and I finally met my friends again! Yeah!!' - Hannis



The journey begun....

Office of Campus Director building

Activities	Venue
Registration	OCD Grand Hall
Briefing	OCD Grand Hall
Asar Prayer	Masjid SAS
Riadah	OCD Square
Dinner	OCD Square
Maghrib & Isya' Prayer	Masjid SAS
Briefing & Disperse	OCD Grand Hall

The registration held in this great hall which decorated with many purple and silver balloons all over the place. It was nice actually, like coming to a prestigious wedding. hehehe  ^__^

OCD Square

After the very long important briefing in the Grand Hall, we played Mickey Mouse game. Because it involved so many sisters, the game became too ridiculous to play. So, we had to divide into the  group of ten. Then, it made more sensible, and fun. ^_^

Masjid Sultan Ahmad Shah

Like the love at the first sight, this magnificent mosque has a very electrifying aura that attracted many jemaah to come and perform 'ibadah. And this mosque became the first place where we learned to purify the heart of many newcomers of batch 13/14. 

In a way, the committee of the ta'aruf programme surely gave a lot of thoughts for us, as the freshie. Thanks to Allah, and them for the smooth journey we had.








 Credit to: 1) http://jimie1402.blogspot.com/2012/06/iium-kuantan.html
                2) Syakirah Ahmad

PDB

ASSALAMUALAIKUM...

today, we would like to introduce you guys about biology as we are the biotechnology  students.

hope you guys enjoy it ^_^

(as we enjoy it>>hahaha)

The PDB which stands for Protein Data Bank, is a repository for the 3-D structural data of large biological molecules, such as proteins and nucleic acid.

There are 5 protein structures that we would love to suggest for you to be stressed of. hehe..

PROTEIN	STRUCTURE WEIGHT (asymmetric unit)	CLASSIFICATION
Oligopeptidase	80762.80	Hydrolase
Prolyl oligopeptidase	82236.02	Hydrolase
Thermolysin	35638.57	Hydrolase
Collagenase	18426.06	Cell Adhesion
Signal Peptidase	17286.14	Hydrolase

Collagenase

Collagenase is the enzyme that breaks down the peptide bond in collagen. It can be made by the body as part of its normal immune response.

Prolyl oligopeptidase

Prolyl oligopeptidase is also known as prolyl endopeptidase, (PE). It involved in the maturation and degradation of peptide hormones and neuropeptides.

Thermolysin

Thermolysin is the most stable member of a family of metalloproteinases produced by various Bacillus species.

Oligopeptidase

Oligopeptidase play essential roles as hormones, in the surveillance against pathogens and in neurological activities.

Signal peptidase

Signal peptidases are also found in prokaryotes as well as the protein import machinery of mitochondria and chloroplasts.




For further references,you can visit this PDB-101 , okay!


Have Fun!!!

HTML

ASSALAMUALAIKUM..

Peace be upon you.

Today,I would like to share to all of you blogwalker, on how to do your own web page by using HTML.

Firstly,
Open notepad application in your windows.
Then,copy or type this text.
As picture below shown;

This is for your first paragraph or to typing whatever that you want to write in your web page.
Then,save this as
1) whatevertitle.txt   -for your reference
2)whatevertitle.html -to view your web page


For insert table in your web page,you can use the text as highlighted below,(w3school )





Then,edit the table as you wish :)...

Venue	Activities
Dataran Merdeka	Marching

If you wish to include a link that can connect to other web page, type the text below, then change #C4 to that link.





As for the last, you can also put an images whether it is moving or non-moving images by yourself.
Just edit the ''th.jpg'' and replace it with your non moving image's name. Make sure that your image's name is the same as the name that you use in your folder. For the moving image,you have to download the animated image and save it in the same folder .

 

The link will appear as picture below as you 'Save as ' it as '.html ' as the extension of your title..