Evolution ERp18
This page discusses the evolution of the target protein, Endoplasmic reticulum thioredoxin superfamily member.
Introduction
importance of evolution
Methods
To generate a collection of sequences which were, apparently, related to the target protein (ERp18), a PSI-Blast search was conducted. PSI-BLAST is advantageous as it uses an iterative approach whereby selected, relavent results from previous searches are used to inform the next search operation. The PSI-BLAST method was particularly useful in this circumstance since ERp18 is part of a superfamily of proteins and so has many homologues which have high identity scores and low e-vaulues but are actually different proteins.
The collected sequences were analysed using the MEGA4 suite. This program packages allows:
- multiple sequence alignment,
- phylogenetic tree generation,
- bootstrapping,
- viewing and editing of phylogenetic trees
All of which were important to this assignment.
The Dayhoff Matrix was used to generate phylogenetic trees throughout this analysis
Results
Sequence Alignment
Phylogenetic Trees
add other zoomed in trees
Discussion
related to what organisms?
distant from other orgaisms?
important enzyme?
