Re: [ccp4bb] calc SF from map for MR - PHASER

Heidi Schubert wrote: Hi I would like to convert a map into SFs to use for molecular replacement. Read on if you think you can help. I have a 3.7A MAD data set and a few 30% similar homology models for crystal in i222 space group. The combination of the two pieces of information generated

[ccp4bb] calc SF from map for MR - PHASER

Hi I would like to convert a map into SFs to use for molecular replacement. Read on if you think you can help. I have a 3.7A MAD data set and a few 30% similar homology models for crystal in i222 space group. The combination of the two pieces of information generated solvent flattened phases

Re: [ccp4bb] protein crystallography universe

Does this mean that you are now "King" of the protein crystallography universe? I am confident that you will be a kind and benevolent ruler, Diana On Oct 14, 2008, at 2:47 PM, Paul Swepston wrote: Folks: While attending the ICSG meeting in Oxford last month it struck me that there might

Re: [ccp4bb] protein crystallography universe

"pxuniverse" - so you want to start out by excluding the nucleic acids universe? ;) Also, I note that it ends in .com. Will this be a commercial site? Will you be selling ads or some such? Cheers, - === You can't possibly be a

Re: [ccp4bb] protein crystallography universe

Very nice! You did much leg work...Thanks. > Folks: > > While attending the ICSG meeting in Oxford last month it struck me that > there might be a need for a general protein crystallography portal > containing information about software, websites, jobs, journals, > organizations, education, etc.

[ccp4bb] protein crystallography universe

Folks: While attending the ICSG meeting in Oxford last month it struck me that there might be a need for a general protein crystallography portal containing information about software, websites, jobs, journals, organizations, education, etc. While I realize that many people have created great li

Re: [ccp4bb] Atom labels in PDB file for Refmac

Thanks to all who answered - and so fast! - MET residues should become MSE (i.e. Se-MET instead of S-Met) - ' SD ' atom name should become 'SE ' - remove the columns 77-80 I had changed S to SE and that's fine Simply using an editor I changed the pdb file - and it works!! Thanks again, A

Re: [ccp4bb] Atom labels in PDB file for Refmac

Dear Anita, Selenomethionine should be named MSE. The residue will show as HETATM, rather than ATOM, and MSE should be used consistently (SEQRES, HELIX, etc.) for the appropriate residues. I do not know what various software packages do with MSE but it occurs frequently so I would be

Re: [ccp4bb] Atom labels in PDB file for Refmac

Hi, - MET residues should become MSE (i.e. Se-MET instead of S-Met) - ' SD ' atom name should become 'SE ' - remove the columns 77-80 - run PDBSET to let it re-generate columns 77-80 again. So something simple minded like % grep "^CRYST1" your.pdb > tmp.pdb % egrep "^ATOM|^HETATM" y

[ccp4bb] Atom labels in PDB file for Refmac

Dear all, This question may have been asked before, but I cannot find an answer in the recent ccp4bb archives - sorry! I am using an SeMet-protein data set as my native protein, since it diffracted to high resolution and should give all the information I need. I would therefore like to in

[ccp4bb] Enzyme responsible for O3 or O4 GlcNAc succinylation?

Dear All: Does any one out there know of an enzyme that succinylates O3 and/or O4 in GlcNAc? Thank you all Subbu

Re: [ccp4bb] Crystal growing in one direction...need suggestions

Shivesh-- You might consider the following options in addition to what you have already seen: pulsing experiments where you add a bit of fresh protein to the drops add water to your drops to see if the crystals dissolve & form a new crystal form try the Hampton Research Silver Bullets Screen.

Re: [ccp4bb] Crystal growing in one direction...need suggestions

You could also try seeding, crush up your needles seed a new plate and re-screen. With re-screen I mean not your original conditions but e.g. Hampton 1&2 or orthers and see if you get a different condition with other crystals. You might also see into your current condition. I assume you have

Re: [ccp4bb] Crystal growing in one direction...need suggestions

Hi, you could also try microseed matrix screening in order to find new crystallization conditions. - Jeroen - shivesh kumar wrote: Dear all, I have crystallized a protein in MPD which is thin and growing in one direction only. I have tried ethonal, DMSO, Proline, Glucose, Urea, Sucrose, D

Re: [ccp4bb] Crystal growing in one direction...need suggestions

Hi I also like to try the Hampton additive kit or the easier version; 90% current condition (at 1.1x) and 10% of any screen you can lay your hands on (ie hampton 1 & 2). Sitting verse hanging drops can change crystal size. Also in situ limited proteolysis, crazy but it works see for more info an

[ccp4bb] Crystal growing in one direction...need suggestions

Dear all, I have crystallized a protein in MPD which is thin and growing in one direction only. I have tried ethonal, DMSO, Proline, Glucose, Urea, Sucrose, Detergent kit from Hampton and lot more alongwith temperature variation. Need suggestions regarding improvement of xtal quality, THICKNESS. Th

[ccp4bb] CCP4 study weekend, early-bird ends 17 Oct

Dear All The early bird registration for the 2009 CCP4 Study Weekend closes on 17 Oct and reg fees will jump from 120 to 160 on 18 October. (final registration is 13 Dec). The title of the meeting is: "Experimental Phasing and Radiation Damage" In East Midlands Conference Centre, Nottingh