This presentation is about the Predicting PTMs in very effective way. I hope you all will like it,,, Don't forget to remember me in your precious Dua,,,

1. Course title: Basic Bioinformatics
Course Code:ZOL-602/652
Practical
Credit hours: 3(2-1)

2. Practical #7
Predicting Protein PTM
BY DR. SAIRA HINA

3. To determine the Post Translational Modifications involved in
P53355 and to determine the residues involved in PTM.
AIMS

4. Introduction:
 Post-translational modification (PTM) is the chemical modification of a
protein after its translation.
 It is one of the later steps in protein biosynthesis, and thus gene
expression, for many proteins.
 After translation, the posttranslational modification of amino acids
extends the range of functions of the protein by attaching it to other
biochemical functional groups (such as acetate, phosphate, various
lipids and carbohydrates), changing the chemical nature of an
amino acid (e.g.citrullination), or making structural changes (e.g.
formation of disulfide bridges).

5.  Also, enzymes may remove amino acids from the amino end of the
protein, or cut the peptide chain in the middle.
 Also, most nascent polypeptides start with the amino
acid methionine because the "start" codon onmRNA also codes for
this amino acid.
 This amino acid is usually taken off during post-translational
modification.
 Other modifications, like phosphorylation, are part of common
mechanisms for controlling the behavior of a protein, for instance
activating or inactivating an enzyme.

6. Methods
1. Open Uniprot Database www.unitprot.org’
2. Enter the protein Id P53355 in search tab and click on Find.
3. Click on the protein name displayed on the result page.

7. Result and inference
 P53355 is a Death-associated protein kinase 1.
 PTM involved is Phosphoprotein Ubl conjugation and PTM is Ubiquitinated by the
BCR(KLHL20) E3 ubiquitin ligase complex, leading to its degradation by the
proteasome.
 The residues involved are :
• Phosphoprotein : Target amino acid is usually serine, threonine or tyrosine
residues.
 Ubl conjugation : Protein which is posttranslationally modified by the attachment of at
least one ubiquitin-like modifier protein, such as ubiquitin, SUMO, APG12, URM1 or
RUB1.
 Ubiquitin, for example, is linked through a thioester bond between its C-terminus
and the epsilon group of a lysine residue present on either another ubiquitin-like
modifier protein or a target protein.

8. Video Links
 https://www.youtube.com/watch?v=1swnzBM7eZo
 https://www.youtube.com/watch?v=Gu_YFnzmLsI

9. References
 http://www.ncbi.nlm.nih.gov
 BI0505 BIOINFORMATICS- TECHNIQUES & APPLICATIONS
LAB MANUAL Offered to I YEAR M.TECH BIOINFORMATICS.
DEPARTMENT OF BIOINFORMATICS, SCHOOL OF
BIOENGINEERING, SRM UNIVERSITY, KATTANGULATHUR.

 Kailash Chandra Samal, Bioinformatics Practical Manual, Book ·
January 2014, College of Agriculture, Orissa University of Agriculture
& Technology, Bhubaneswar.