Protein domains 13.12.2018 Jasmin sutkovic

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

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

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

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

Finding motifs in the sequence

Paste the amino acid sequence in the field Press Submit 

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