[ccp4bb] Phylogenetic analysis??

- Protein crystallography

Main steps:

- Protein purification
- Crystallisation

Special:

- Programs for crystallography
- X-ray detectors

Basic tutorials:

   - Chemistry
   - Protein
   - Peptide
   - Amino Acids

Xtal community:

- CCP4BB

CCP4bb navigation

CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: summary of cartoon problem and a question
From: pramod madoori madooripramod {- at -} GMAIL {- dot -} COM
Date: 2008-11-05

Next message:
Subject: User proposal submission for Collaborative Crystallography at BCSB
From: Banumathi Sankaran BSankaran {- at -} LBL {- dot -} GOV
Date: 2008-11-05

Subject: Phylogenetic analysis??
From: Raji Edayathumangalam raji {- at -} BRANDEIS {- dot -} EDU
Date: 2008-11-05

Hi Everyone,

Could someone please tell me how to display the evolutionary/
phylogenetic tree of the homologs of my protein of interest.

When I perform a PSI-BLAST search for my protein, I receive about 130
top hits for homologs. The NCBI or EBI tools that I've laid my hands
on seem to only display a 'phylogenetic' tree based on the distance
relationships between the protein sequences and that is not what I am
after. I'd like to find a way to resort the results and redisplay a
tree that say progresses from, say 'yeast to human'. What I have now
is the organisms shown in some random order, say, rat followed by C.
elegans followed by human. I am going bonkers trying to find a simple
way to do what I want.

Thanks and sorry for this Bioinformatics101-type question.
Raji

CCP4bb navigation

CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: summary of cartoon problem and a question
From: pramod madoori madooripramod {- at -} GMAIL {- dot -} COM
Date: 2008-11-05

Next message:
Subject: User proposal submission for Collaborative Crystallography at BCSB
From: Banumathi Sankaran BSankaran {- at -} LBL {- dot -} GOV
Date: 2008-11-05