Re: [ccp4bb] Bad sidechain geometry

2007-10-15 Thread Anastassis Perrakis
On 16 Oct 2007, at 8:44, Tim Gruene wrote: -BEGIN PGP SIGNED MESSAGE- Hash: SHA1 Hi Iain, I know there are (at least) two schools of thought and both have their justification, and my suggestion does not explain you phenomenon. However, instead of setting the occupancy to zero, I

Re: [ccp4bb] Bad sidechain geometry

2007-10-15 Thread Tim Gruene
-BEGIN PGP SIGNED MESSAGE- Hash: SHA1 Hi Iain, I know there are (at least) two schools of thought and both have their justification, and my suggestion does not explain you phenomenon. However, instead of setting the occupancy to zero, I would rather delete the affected atoms/ residue

[ccp4bb] Postdoctoral position available to study halogen bonds

2007-10-15 Thread Ho,Shing
There is a post-doctoral position is available in Dr. P. Shing Ho¹s laboratory in the Department of Biochemistry & Molecular Biology at Colorado State University to study halogen bonds for molecular engineering and drug design. A wide range of projects ranging from X-ray crystallography to biochem

[ccp4bb] Bad sidechain geometry

2007-10-15 Thread Iain Kerr
Dear all, I'm refining a structure (with TLS, Hs in riding positions) to 2.9A - Rfree ~29.9%/Rfac 26.5% in Refmac5 v5.2.0019. Rmsd bonds 0.008A/1.1deg angles. In COOT (0.31) many of the residues whose side chains are (fully or partially) set to 0.00 occupancy have really bad geometry...for w

[ccp4bb]

2007-10-15 Thread Marius Schmidt
Dear All, is there someone who can point me to a beautiful image of an energy landscape of a protein (enzyme) along the reaction coordinate (the enzymatic pathway)? Sorry for the non-ccp4 related request, but you are the experts. Best Marius Dr.habil. Marius Schmidt Asst. Professor University o

[ccp4bb] Rare syst. absences n P212121

2007-10-15 Thread Enrique Rudiño-Piñera
Dear All, I am working with a data set which seems to be orthorhombic. The self rotation function maps in P1 clearly show a 222 symmetry. Even mosflm detect easily an orthorhombic space group. The fst problems is that the systematic presences are rare: h00 are clearly 2n; 0k0 in bits seems to be

[ccp4bb] Last chance to help or support CCP4

2007-10-15 Thread Jim Naismith
Dear Colleagues, Thank you to the over 60 people who have written supporting CCP4. Your help and support is much appreciated. I don't want to sound like pledge week on PBS or children in need on BBC. I know we are all busy, I promise this is the last posting. We need your