Biocomputing Unit
Biocomputing
Sequence Analysis Service
Gibson Group
EMBL
EMBL

Predocs04 Course

Basic Tools in Sequence Analysis Practical

by Toby Gibson and the Sequence Analysis Team, October 6-7th, 2004

Answers to Questions


Part 1. WWW sequence similarity search Tools

Step 2 BLAST2 searching with human SM-B protein

Questions and Answers

Step 2B BLAST 2 search with SM-B and a filter

Questions and Answers


Step 3 Bic_SW search with human SM-B protein

Questions and Answers

Step3B Bic-SW search with the SM Domain only

Questions and Answers


Part 2. Exploring protein architecture and function with SMART, GlobPlot and ELM

Step 1. Comparing a sequence to a database of protein domains

Questions and Answers


Step 2. Exploring order/disorder with Globplot

Questions and Answers


Step 3. Searching for short functional sites with the ELM server

Questions and Answers


Step 4. Exploring the architecture of the protein Epsin1.

Questions and answers


Part 3. Making multiple sequence alignments and calculating a tree.

Step 2. Aligning the elongation factor sequences with Clustal X

Questions and answers


Step 3. Calculating a tree with Clustal X and displaying it with NJplot

Questions and answers