AMBER Archive (2005)

Subject: RE: AMBER: peptide side chain modification with LEAP

From: Ross Walker (ross_at_rosswalker.co.uk)
Date: Tue Apr 12 2005 - 10:45:23 CDT

Dear Hannes

> I try to use LEAP to set up an oligopeptide with a dye labelled lysine
> within. I already set up prep and frcmod files for the dye using
> Antechamber, successfully. Using the dye's library for a
> sequential peptide,
> i.e. having the dye attached at the N terminus of the peptide
> works fine.
> (Using pep = sequence {DYE PRO LYS ...})

This tutorial deals with what you want to do.

http://www.rosswalker.co.uk/tutorials/amber_workshop/Tutorial_four/index.htm

You could also look at this one which shows how to use antechamber with
leap.

http://www.rosswalker.co.uk/tutorials/amber_workshop/Tutorial_five/index.htm

I hope this helps.
All the best
Ross

/\
\/
|\oss Walker

| Department of Molecular Biology TPC15 |
| The Scripps Research Institute |
| Tel:- +1 858 784 8889 | EMail:- ross_at_rosswalker.co.uk |
| http://www.rosswalker.co.uk/ | PGP Key available on request |

Note: Electronic Mail is not secure, has no guarantee of delivery, may not
be read every day, and should not be used for urgent or sensitive issues.
 

-----------------------------------------------------------------------
The AMBER Mail Reflector
To post, send mail to amber_at_scripps.edu
To unsubscribe, send "unsubscribe amber" to majordomo_at_scripps.edu