[ccp4bb] Density modification

- 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: Re: tips on crystallizing a Protein-DNA complex
From: peter hudson peter {- dot -} hudson {- dot -} peter {- at -} GMAIL {- dot -} COM
Date: 2009-07-25

Next message:
Subject: YSBL server
From: Garib Murshudov garib {- at -} YSBL {- dot -} YORK {- dot -} AC {- dot -} UK
Date: 2009-07-26

Subject: Density modification
From: kumar bputcha {- at -} UTK {- dot -} EDU
Date: 2009-07-25

Dear CCP4¹ers, I¹m trying to run DM for after Refmac on an MR solution but
it crashes. I do have the FOM¹s listed in my log file. I get a similar error
when I use the mtz file from Phaser¹s SAD + MR. I¹d appreciate any help.
Thanks! Kumar

After Refmac ŠŠŠŠŠŠŠŠŠŠ..

HISTLIB opened:
Number of histograms = 18
Number of entries per histogram = 100
RESL 10.0 8.0 7.0 6.0 5.0 4.5 4.0 3.6 3.3 3.0 2.8 2.6 2.4 2.2
2.0 1.8 1.6 1.5

Initial Solvent Mask

dm: (WFO) No density in map! Check input FOM present and nonzero
Times: User: 0.2s System: 0.0s Elapsed: 0:01

***************************************************************************
* Information from CCP4Interface script
***************************************************************************
The program run with command: dm HKLIN
"/home/elias/kumar/7_20/K15/reprocess/ccp4/cns/round2/round3/round4/round4_r
efmac1.mtz" HKLOUT
"/home/elias/kumar/7_20/K15/reprocess/ccp4/cns/round2/round3/round4/round4_d
m2.mtz" SOLOUT
"/home/elias/kumar/7_20/K15/reprocess/ccp4/cns/round2/round3/round4/round4_d
m1.msk"
has failed with error message
dm: (WFO) No density in map! Check input FOM present and nonzero
***************************************************************************

#CCP4I TERMINATION STATUS 0 " dm: (WFO) No density in map! Check input FOM
present and nonzero"

***********************************************
After Phaser (SAD+MR)ŠŠŠŠŠ..

Initial Solvent Mask

dm: (WFO) No density in map! Check input FOM present and nonzero
Times: User: 0.2s System: 0.0s Elapsed: 0:00

***************************************************************************
* Information from CCP4Interface script
***************************************************************************
The program run with command: dm HKLIN
"/home/elias/kumar/7_20/K15/reprocess/ccp4/cns/round2/round3/round4/round4_9
.mtz" HKLOUT
"/home/elias/kumar/7_20/K15/reprocess/ccp4/cns/round2/round3/round4/round4_9
_dm1.mtz" SOLOUT
"/home/elias/kumar/7_20/K15/reprocess/ccp4/cns/round2/round3/round4/round4_9
_dm1.msk"
has failed with error message
dm: (WFO) No density in map! Check input FOM present and nonzero
***************************************************************************

#CCP4I TERMINATION STATUS 0 " dm: (WFO) No density in map! Check input FOM
present and nonzero"
************************************

CCP4bb navigation

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

Previous message:
Subject: Re: tips on crystallizing a Protein-DNA complex
From: peter hudson peter {- dot -} hudson {- dot -} peter {- at -} GMAIL {- dot -} COM
Date: 2009-07-25

Next message:
Subject: YSBL server
From: Garib Murshudov garib {- at -} YSBL {- dot -} YORK {- dot -} AC {- dot -} UK
Date: 2009-07-26