Instructions

Click on "Part A - Calculation of molecular weight and molar extinction coefficient of amino acid sequence" button.
Click on "Part B - Calculation of pI of peptide and amino acid" button.
Click on "Part C - Calculation of melting temperature (t_m) of DNA sequence" button.

Note: To repeat the experiment, click on the "Re-Do the Experiment" button.

Instructions

Click on the button "Table of molecular weights of amino acid and corresponding 3-letter code and 1-letter code" to see the 1-letter code and corresponding molecular weight. Click on the button to close the table.
Enter any Amino acid sequence in the input box and click on the button "Submit".

Approximate molecular weight of the sequence

Enter number of amino acid in the input box.
Click on "Check" button to display a message indicating correctness. To reveal the correct answer, click on the "Show Answer" button.

Actual molecular weight of the sequence
1. Enter the calculated molecular weight of amino acid in the input box.
2. Click on "Check" button to display a message indicating correctness. To reveal the correct answer, click on the "Show Answer" button.
Molar extinction coefficient of peptide sequence

Enter number W, Y and C in the respective input boxes.
Click on "Check" button to display a message indicating correctness. To reveal the correct answer, click on the "Show Answer" button.

Amino Acid	3-letters code	1-letter code	Molecular weight
Alanine	Ala	A	89.1
Arginine	Arg	R	174.2
Asparagine	Asn	N	132.1
Aspartate	Asp	D	133.1
Cysteine	Cys	C	121.2
Glutamate	Glu	E	147.1
Glutamine	Gln	Q	146.2
Glycine	Gly	G	75.1
Histidine	His	H	155.2
Isoleucine	Ile	I	131.2
Leucine	Leu	L	131.2
Lysine	Lys	K	146.2
Methionine	Met	M	149.2
Phenylalanine	Phe	F	165.2
Proline	Pro	P	115.1
Serine	Ser	S	105.1
Threonine	Thr	T	119.1
Tryptophan	Trp	W	204.2
Tyrosine	Tyr	Y	181.2
Valine	Val	V	117.1

Enter the amino acid sequence (5-20 amino acid)

Calculate the approximate molecular weight of the peptide sequence

M.W. =

x 110 =

Calculate the actual molecular weight of the peptide sequence [Molecular weight of water is 18.01]

M.W. =

Calculate the molar extinction coefficient of the peptide sequence

ε =

(

x 5500 ) + (

x 1490 ) + (

x 125 ) =

M ^-1cm ^-1

Instructions

Click on "Table of pK_a and pI values" to see the specific values for each amino acid. Click on the button to close the table.
To calculate pI of the selected peptide or amino acid, enter the pK_a value in the given input box; where pK_a1 is α - carboxyl group, pK_a2 is α-ammonium ion, and pK_a3 is side chain group. Click the "ckeck" button to indicate the correctness. To reveal the correct answer, click on the "Show Answer" button.
Enter net charge value in the given input box of selected the tripeptide. Click the "check" button to indicate the correctness. To reveal the correct answer, click on the "Show Answer" button.

Amino Acid	pK_a1	pK_a2	pK_a3	pI
Glycine (Gly)	2.34	9.60	-	5.97
Alanine (Ala)	2.34	9.69	---	6.015
Valine (Val)	2.32	9.62	---	5.96
Leucine (Leu)	2.36	9.60	---	5.98
Isoleucine (Ile)	2.36	9.68	---	6.02
Methionine (Met)	2.28	9.21	---	5.74
Proline (Pro)	1.99	10.60	---	6.295
Phenylalanine (Phe)	1.83	9.13	---	5.48
Tryptophan (Trp)	2.38	9.39	---	5.885
Asparagine (Asn)	2.02	8.80	---	5.41
Glutamine (Gln)	2.17	9.13	---	5.65
Serine (Ser)	2.21	9.15	---	5.68
Threonine (Thr)	2.09	9.10	---	5.595
Tyrosine (Tyr)	2.20	9.11	---	5.66
Cysteine (Cys)	1.96	8.18	---	5.07
Aspartic acid (Asp)	1.88	9.60	3.65	2.77
Glutamic acid (Glu)	2.19	9.67	4.25	3.22
Lysine (Lys)	2.18	8.95	10.53	9.74
Arginine (Arg)	2.17	9.04	12.48	10.76
Histidine (His)	1.82	9.17	6.00	7.59

Select a peptide or amino acid

Calculate Isoelectic point (pI)

pI=

(

)

2 =

Instructions

Enter DNA sequence in the input box 5'-3' and enter complementary DNA sequence in the input box 3'-5'. Click on the "Submit" button.

Approximate molecular weight of double-standed DNA sequence

Enter number of bases from single strand DNA sequence in the input box.
Click on "Check" button to display a message indicating correctness. To reveal the correct answer, click on the "Show Answer" button.

Actual molecular weight of double-stranded DNA sequence

Enter total number of A, T, C, G from the double strand DNA in the respective input boxes
Next Click on "Check" button to display a message indicating correctness. To reveal the correct answer, click on the "Show Answer" button.

Melting temperature (t_m) of double-stranded DNA sequence

Enter the melting temperature of the DNA sequence in the input box "Enter calculated t_m".
Click on "Check" button to display a message indicating correctness. To reveal the correct answer, click on the "Show Answer" button.

Click on "Plot Tm Vs Percentage of single stranded DNA" button.

Enter the DNA sequence (5-15 bases)

^5'

^3'

^5'

Calculate the approximate molecular weight of double-standed DNA sequence

660 x

Calculate the actual molecular weight of the double-stranded DNA sequence

M.W =

(

x 313.2 ) + (

x 304.2 ) + (

x 289.2 ) + (

x 329.2 )

Calculate the melting temperature (t_m) of double-stranded DNA sequence

Tm =

(

) x 2 + (

) x 4

°C

Representative curve of melting temperature of DNA versus Denaturation

GC contain of DNA strand B is higher than that of DNA strand A

pH	1	3	4	5	10
Net Charge