[ccp4bb] model bias

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

Previous message:
Subject: AW: Crystallization Reagent
From: Clemens Steegborn Clemens {- dot -} Steegborn {- at -} RUB {- dot -} DE
Date: 2009-08-11

Next message:
Subject: a simple question: how is redundancy measured?
From: Francis E Reyes Francis {- dot -} Reyes {- at -} COLORADO {- dot -} EDU
Date: 2009-08-11

Subject: model bias
From: ManojSaxena mks131 {- at -} REDIFFMAIL {- dot -} COM
Date: 2009-08-11

Hi all,

I am working with a protein that have 28% similar to my MR template.

I have processed data in HKL2000 for one of my crystal and I got unique sol in space group

P212121. with LLG 131 and TFZ score 13.5

I have used buccaneer and coot for model building and my Rfee came to 45%.

I used the PDB file from this crystal ( Rfee of 45%) as my MR model for data obtained from

another crystal and got sol with TFZ score=40.5 and LLG=2305.

I used coot and did a round of refmac refinement now my Rfee is 41%.

My concern is

a) wether my scheme is good or not because I am afraid that this will increase the model

bias.

b)Now I am stuck at 41% Rfee I have many chain breaks and loop regions have not good

density. I tried TLS refinement it did not help. what else I shall try??

Thanks

Manoj

PSU

Biochemistry

CCP4bb navigation

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

Previous message:
Subject: AW: Crystallization Reagent
From: Clemens Steegborn Clemens {- dot -} Steegborn {- at -} RUB {- dot -} DE
Date: 2009-08-11

Next message:
Subject: a simple question: how is redundancy measured?
From: Francis E Reyes Francis {- dot -} Reyes {- at -} COLORADO {- dot -} EDU
Date: 2009-08-11