Project plan for the short report

Project plan for the short report

Week 1 tasksDownload the sequences for the following proteins

GipieGirdinDapleUse following databases to download the above-mentioned sequences

NCBI for humans

Flybase for Drosophila melanogaster (https://flybase.org/)

Wormbase for C-elegans (https://wormbase.org//#012-34-5)

Use Blastp and tBLASTN program to find homolog sequences (select non-redundant(nr) protein sequence database for BLASTp and nr-nucleotide database for tBLASTN9461502679700

Save the result in excel file and also download the homolog sequences

Use interproscan (https://www.ebi.ac.uk/interpro/search/sequence/) to find the domains of all three proteins from human, D.melanogaster, and C. elegansUse Consurf to find conserved residues (https://consurf.tau.ac.il/consurf_index.php) in each sequence as mentioned in step E

Which one came first? The Hook proteins or the Hook-related proteins?

In humans, we have three Hook proteins: Hook 1, Hook 2 and Hook 3 and three Hook-related proteins: Girdin, Gipie and Daple. As these proteins are involved in protein trafficking and microtubule linkage, among other functions, they are restricted to eukaryotes.

The aim of this study is to investigate orthologues in different eukaryotic clades and see how far in evolution we can track them. It is known that in lower eukaryotes, there may be just one protein from each family, rather than three.

Human Hook proteins

Hook 1: an N-terminal Calponin-homology (CH), followed by two long coiled coil domains.

Hook 2: (Adi to complete)

Hook 3: (Adi to complete)

Go to OrthoDB from Hook1 entry:https://www.orthodb.org/?query=398210at2759Table of different clades go here: (Adi to fill this in)

Similarly, work on Hook-related proteins:

GirdinGipie

DapleFor these we need orthologues from different species.

Go to the following for Girdin and then scroll down to

Go to OrthoDB