1. Protein domains 13.12.2018 Jasmin sutkovic

2. Protein domains...
... a nicer way to predict 3D structure of a protein 

3. Domains... Fold individually Accelerate the process of folding
Reduce the large number of possible residue interactions

11. Let‘s become smart  SMART – Simple Modular Architecture Research Tool
It allows us to identify domains and analyze their architecture
Domains are stored in the database based on their phyletic distributions, functional class, tertiary structures and functionally important residues

14. Normal vs genomic mode
The main difference is in the protein database used
Normal mode contains more databases (proteomes)
Genomic mode contains only proteomes of sequenced genomes
Normal mode has redundancy
Genomic mode is more precise/accurate/reliable but has a smaller database

22. Finding motifs in the sequence

23. Paste the amino acid sequence in the field
Press Submit 

24. The results are viewed like this
We can find out the most information from the first few rows, where we can see the domains and some disorder as well
Lower rows represent some simillar motifs found in different proteins