Re: [ccp4bb] hydrophobic surface representation

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

Previous message:
Subject: hydrophobic surface representation
From: Sebastiano Pasqualato sebastiano {- dot -} pasqualato {- at -} IFOM-IEO-CAMPUS {- dot -} IT
Date: 2008-11-06

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Subject: Re: hydrophobic surface representation
From: Madhumati Sevvana msevvana {- at -} BIOLOGIE {- dot -} UNI-ERLANGEN {- dot -} DE
Date: 2008-11-06

Subject: Re: hydrophobic surface representation
From: Tim Gruene tg {- at -} SHELX {- dot -} UNI-AC {- dot -} GWDG {- dot -} DE
Date: 2008-11-06

At the bottom of the page
http://cmgm.stanford.edu/classes/grasp/
is the code how to colour code hydrophobic residues with GRASP - this is
not a calculation, I'm afraid, just colour coding.

As far as I know GRASP does not have a web-interface. You can install
grasp in a Windows installation within a Virtual Machine (e.g.
virtualbox), so you can run it on your linux (mac) box.

I only installed grasp within Virtualbox without really testing it, so I
am not sure how it would perform graphic wise.

Tim

--
Tim Gruene
Institut fuer anorganische Chemie
Tammannstr. 4
D-37077 Goettingen

GPG Key ID = A46BEE1A

On Thu, 6 Nov 2008, Sebastiano Pasqualato wrote:

>
> Hi all,
> I'd love to have a surface representation of my structure in which I
> plot the hydrophobic exposed residues.
> A bit like an electrostatic potential plotted onto the surface, but
> rather than hydrophilic, an hydrophobic one.
> Is there a nice web server or a program that does that or you guys
> just color hydrophobic amino acids and show the surface?
> Thanks in advance,
> s
>
> --
> Sebastiano Pasqualato, PhD
> IFOM-IEO Campus
> Dipartimento di Oncologia Sperimentale
> Istituto Europeo di Oncologia
> via Adamello, 16
> 20139 - Milano
> Italy
>
> tel +39 02 9437 5094
> fax +39 02 574 303 310
>

CCP4bb navigation

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

Previous message:
Subject: hydrophobic surface representation
From: Sebastiano Pasqualato sebastiano {- dot -} pasqualato {- at -} IFOM-IEO-CAMPUS {- dot -} IT
Date: 2008-11-06

Next message:
Subject: Re: hydrophobic surface representation
From: Madhumati Sevvana msevvana {- at -} BIOLOGIE {- dot -} UNI-ERLANGEN {- dot -} DE
Date: 2008-11-06