[ccp4bb] New CCP4MG release (2.5.1)
Dear All,
The CCP4MG team would like to announce the latest release (version 2.5.1)
of the program. This is largely a performance and stability improvement
release. A fuller list of changes is given below. The program can be
downloaded from:
http://www.ccp4.ac.uk/MG/download/
Best wishes,
CCP4MG
* Major speed in improvements from rewriting OpenGL drawing to use Vertex
Arrays and Vertex Buffer Objects
* Fix several memory leaks, especially serious ones when saving movie
frames and deleting structures.
* Fix translation problem when generating assemblies in PISA interface.
* The Linux binary is now built on CentOS 5 for better compatibilty with
more Linux distributions. A build parameter was also changed to increase
portability and stability.
* Multiple lights now work when OpenGL shaders active.
* Better transparency of surfaces.
* Flat colour option inside surface with shiny outside with OpenGL
shaders.
* Fix problem with clipping of maps after transformation has been applied.
* New drawing style Circles.
* Small utility to generate idealized alpha, pi and 3-10 helices.
* Fix problem with some hydrogen-bonds not being dashed lines when they
should.
* Approximate normal modes calculation and visualization.
* Fix problems with bits of file dialog still being visible after closing.
* Support for filenames/directories with non-ASCII names.
* Fix problems with lighting in Render module.
* Selection improvements: much better performance with large structures,
use SITE specification in pdb files.
* Improvements in identifying lipids.
* Colour blend goes form blue to red as chain goes N to C.
* Movie preferences simplified.
* Fix problem with R3/H3 symmetry from pdb files.
* Fix the Error with fixed model problem when restoring status in
Superpose.
* Fix loading of animation from file with multiple models.
* 2FOFCWT, PH2FOFCWT columns selected by default, if present, when loading
mtz file.
* Fix problem with long file names in sequence viewer.
* Visual improvement in the Axes style of thermal ellipsoids.
Fix loading of some clustalw files into sequence viewer.
* Experimental visualization of results of ProSMART calculations. Colour
by ProSMART score and superpose using ProSMART transformation matrices
implemented.
* Display table docked by default.
* Built-in movie player for Linux.
* Some additional options in picture definition file View stanza: scale =
'auto' (zoom to show whole molecule), scale = '25 ang' (zoom to have 25
angstroms from screen top to bottom); add option to orient view along
smallest principal component e.g. orientation =
{'molData':'toxd','selection':'// /45-46'}
[ccp4bb] Seasonal Quips about Christmas Disease
Hi all, If you should suffer from Christmas Disease, and you were to cut yourself while carving the turkey, you could be in trouble! Find out why in the last episode for 2011 of Quips, PDBe's collection of interactive stories about QUite Interesting Pdb Structures. To access this Quips episode, point your browser at: http://pdbe.org/quips?story=XmasFactor The accompanying mini-tutorial shows you how to carry out a fragment search with PDBeChem so as to identify all small molecules in the PDB archive that contain a benzothiophene moiety. --- On behalf of all PDBe staff: best wishes for the coming holiday season and a well-structured 2012! (Unless you're working on natively unfolded proteins, in which case we wish you an unstructured or partially structured 2012, of course.) --Gerard --- Gerard J. Kleywegt, PDBe, EMBL-EBI, Hinxton, UK ger...@ebi.ac.uk . pdbe.org Secretary: Pauline Haslam pdbe_ad...@ebi.ac.uk
[ccp4bb] wwPDB and EMDataBank Joint Announcement
The Electron Microscopy Data Bank Archive (EMDB) will join the Protein Data Bank archive (PDB) as of 7 March 2012. The archive merger marks an important milestone in the Worldwide Protein Data Bank's mission to maintain a single public archive of macromolecular structural data from all structure determination methods that is freely available to the global community. To read the full 20 December news item please visit http://www.wwpdb.org/ or http://emdatabank.org/
