Re: [ccp4bb] contour map

Leila Foroughi wrote: I'm currently trying to compare single crystal X-ray data for a protein crystal with previously published electron miscroscopy data. I would really like to be able to take my electron density map (from X-ray) and view it as a 2D projection of 3D space (essentially a conto

Re: [ccp4bb] contour map

mapview_x from PHASES shows maps (and masks) in 2D. Pete Leila Foroughi wrote: I'm currently trying to compare single crystal X-ray data for a protein crystal with previously published electron miscroscopy data. I would really like to be able to take my electron density map (from X-ray) and v

Re: [ccp4bb] contour map

Hi Leila, it was 10 years ago when I looked at the maps this way, and at that time I used the program called CAN to do this (see below). It worked really well. If you are lucky it might still be available by request from the authors. Pavel. 1. Vernoslova, E.A., Lunin, V.Yu. (1993) "The FROG PC s

[ccp4bb] Post Doc position in Structural Biology at the University of Warwick, UK

Dear CCP4 bb ??I have a Post doc position available for a biochemist/structural biologist with expertease in Protein crystallography at the University of Warwick in the UK. The project is on aspects of peptidoglycan biosynthesis in Mycobacterium tuberculosis in collaboration with Prof G.S. Besra

Re: [ccp4bb] heavy atom clusters

Hi, I suggest that you check out the lanthanide compounds investigated by a number of people including Richard Kahn. Papers can be found using the iucr web site (and its search function). Commercially available. Fred. > Message du 31/01/11 17:02 > De : "Jan Rashid Umar" > A : CCP4BB@JISCMAIL.

Re: [ccp4bb] ID mapping

Hi, SIFTS provides mappings between PDB and UniProt (and a number of other resources) - see pdbe.org/sifts This file may contain the info you need: ftp://ftp.ebi.ac.uk/pub/databases/msd/sifts/text/pdb_chain_uniprot.lst --Gerard On Mon, 31 Jan 2011, Sridharan, Sudharsan wrote: Hi all,

[ccp4bb] heavy atom clusters

Dear All, I wonder whether it is possible to get some recommendations/suggestions for a new set of powerful heavy atom clusters used to phase macromolecular complexes. Additionally, is anybody familiar whether Pentamethylcyclopentadienyliridium (III) chloride dimer is soluble in water? Your sugg

Re: [ccp4bb] iMosflm execution error - solved?

Hi folks Most of you won't want to know about this It seems that on Ubuntu, there is a difference between the Bourne shell (sh) and the "Bourne-again" shell (bash). On most Linuces, the two are synonymous, though the iMosflm launch script uses specifically sh syntax rather than using the b

[ccp4bb] ID mapping

Hi all, (apologies if sounds off-topic) I have a list of pdb id's of the form 1XXX:Y (that is code:chain id). Is there a way to map this format to get uniprot id's for the entire list. I can use ID mapping in Uniprot but it takes only the code and not the above format. Although it give

Re: [ccp4bb] Counting of geometrical restraints?

Hi Dirk I think cross-validation changed our ideas! Pre-Rfree the statistics of refinement was concerned with the 'number of degrees of freedom': Ndof = Nobs - N'par since this is the expectation of the properly weighted least-squares residual (chi-square or in the paper). If

[ccp4bb] Counting of geometrical restraints?

Dear Ian & other CCP4ers, I want to get a riddle about counting geometrical restraints solved, which emerged in my head after a recent discussion on this board about the effect of NCS on the data:parameter ratio. This discussio

Re: [ccp4bb] How to align electron density maps?

Coot does this seamlessly.. Eleanor SSM superpose A to B NCS Maps will generate the map around A over B - or vice versa.. Eleanor On 01/28/2011 06:15 PM, RONG hui Rong wrote: Dear All, I have the problem as follows, but I can not find the corresponding solution. Can somebody give me some su