Re: [ccp4bb] loop modelling?

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

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Subject: Re: loop modelling?
From: "van den Bedem, Henry" vdbedem {- at -} SLAC {- dot -} STANFORD {- dot -} EDU
Date: 2009-11-01

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Subject: Re: Anomalous map creating
From: Guenter Fritz guenter {- dot -} fritz {- at -} UNI-KONSTANZ {- dot -} DE
Date: 2009-11-02

Subject: Re: loop modelling?
From: Anastassis Perrakis a {- dot -} perrakis {- at -} NKI {- dot -} NL
Date: 2009-11-02

Hi -

Also (low-)density-dependent but keen to build realistic conformations
is LOOPY from ARP/wARP.

A.

On 1 Nov 2009, at 22:52, Pavel Afonine wrote:

> Hi Tommi,
>
> if the map shows some density for that loop, I would try two programs
> (those I'm familiar with):
>
> 1) phenix.fit_loops (need to have PHENIX for this):
> http://www.phenix-online.org/documentation/fit_loops.htm
> http://www.phenix-online.org/
>
> 2) Xpleo:
> http://smb.slac.stanford.edu/~vdbedem/
>
> Pavel.
>
>
>
> On 11/1/09 4:29 AM, Tommi Kajander wrote:
>> Dear all
>> I was wondering if anyone knows a simple way to generate a missing
>> loop (strech of amino acids)
>> really in just some simple manner (no fancy minization necessary, of
>> course some constraints probably dont
>> hurt), just for visualization purposes of further simulations etc....
>>
>> thanks!
>> tommi

CCP4bb navigation

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

Previous message:
Subject: Re: loop modelling?
From: "van den Bedem, Henry" vdbedem {- at -} SLAC {- dot -} STANFORD {- dot -} EDU
Date: 2009-11-01

Next message:
Subject: Re: Anomalous map creating
From: Guenter Fritz guenter {- dot -} fritz {- at -} UNI-KONSTANZ {- dot -} DE
Date: 2009-11-02