[ccp4bb] summary of cartoon problem and a question

- Protein crystallography

Main steps:

- Protein purification
- Crystallisation

Special:

- Programs for crystallography
- X-ray detectors

Basic tutorials:

   - Chemistry
   - Protein
   - Peptide
   - Amino Acids

Xtal community:

- CCP4BB

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

Previous message:
Subject: Summary - crystals grown from high ammonium sulphate
From: Sabine Schneider sabine {- dot -} schneider {- at -} CUP {- dot -} UNI-MUENCHEN {- dot -} DE
Date: 2008-11-05

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Subject: Phylogenetic analysis??
From: Raji Edayathumangalam raji {- at -} BRANDEIS {- dot -} EDU
Date: 2008-11-05

Subject: summary of cartoon problem and a question
From: pramod madoori madooripramod {- at -} GMAIL {- dot -} COM
Date: 2008-11-05

Dear all,

Thank you for the suggestions regarding cartoon problem that I posted on
bulletin board. The problem was due to the separate segID put out after the
phenix refinement. According to the PDB format, if I am not wrong, column
number 73 should be blank which is followed by element name. But phenix puts
segID in that column. During the refinement it has assigned the segID in
column 22 througout where as in other column there were missing in some
cases. Because of that I had seen a break in column in pymol. The
suggestion given by Ingo P. Korndoerfer to assign the segID to those missing
ones helped to close the gap. And also suggestion by Warren DeLano "set
retain_order and rebuild" did the trick.

Presence of segID in column 73 appears to be off the PDB format. But I would
like to know why then phenix.refine adds that additional column in the pdb
file?

Thanking you
Madoori pramod

CCP4bb navigation

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

Next message:
Subject: Phylogenetic analysis??
From: Raji Edayathumangalam raji {- at -} BRANDEIS {- dot -} EDU
Date: 2008-11-05