[ccp4bb] ccp4-6.1.2 on intrepid and jaunty

2009-08-21 Thread Ingo P. Korndoerfer
hello, i have succesfully installed 6.1.2 on ubuntu 8.04 using the automatic installer. the one single correction i had to do was change references from phaser 2.1.6 to phaser 2.1.4 in the setup scripts. runs all fine. now i tried the same with ubuntu 9.04 and get the following error ***

Re: [ccp4bb] xplot 84 driver and "Bad plot84 file format" error

2009-08-21 Thread Charles Ballard
Dear All the downloads package should not be updated to correct this problem Charles On 20 Aug 2009, at 22:11, Brad Bennett wrote: Hi all- Thanks to Charles Ballard, who sent me an xplot driver file with optimization turned off. Once I copied this into my /usr/local/ ccp4-6.1.2/bin folder,

Re: [ccp4bb] electron density map

2009-08-21 Thread Anastassis Perrakis
hi - my two cents: 1. I am puzzled to see only positive and no negative density in the picture 2. I would contour difference maps at 3.5 in general for significant features 3. why is the 2fofc 'heavily biased' ? Its a 2mFo-DFc map presumably, and lots have been said about these maps not bei

Re: [ccp4bb] xplot 84 driver and "Bad plot84 file format" error

2009-08-21 Thread Charles Ballard
Of course that is "now" not "not". So please update to the latest CCP4 goodness. Thanks to various people for pointing that out Charles On 21 Aug 2009, at 10:03, Charles Ballard wrote: Dear All the downloads package should not be updated to correct this problem Charles On 20 Aug 2009, a

[ccp4bb] A question regarding enzymtic assay

2009-08-21 Thread Jin, Kevin
Hi Everybody, I need to refresh my knowledge a little bit for enzymatic/kinetic assay a little. Current Stopped-flow techniques have been well developed, but some basic concepts of kinetic assay in chemistry should still be the same. In principle, the catalytic reaction can be stopped by sever

[ccp4bb] Cryoprotectant for jaffamine

2009-08-21 Thread arpitagoswami
Hi.. Sorry for the non-ccp4 query.I have a protein crystal growing at 0.1 M HEPES-Na (pH7.5), 20% Jeffamine M-600 (sitting drop). Can anyone please suggest for the cryprotectant to be used? Arpita.

Re: [ccp4bb] Crystallization Reagent

2009-08-21 Thread Ulrike Demmer
Dear Paul, AMP-PNP is available from Sigma-Aldrich. Product numbers are A 2647 and 01910. Best wishes, Ulrike

Re: [ccp4bb] electron density map

2009-08-21 Thread Ed Pozharski
Tassos is absolutely right. While it's unlikely that many subscribers of the ccp4bb today suffer the indecency of checking their mailbox over 4kbps flaky modem connection (also known as wishful staring at the progress bar), it still seems pointless to distribute hundreds of megabytes into mailboxe

Re: [ccp4bb] Disorder vs configuration alternation

2009-08-21 Thread Dale Tronrud
Dear Jin, As a conceptional issue, I don't see the different between "disorder" and "alternating configuration". Disorder is present, at a site, when several alternative conformations have nearly equal energies resulting in some molecules adopting one conformation while others adopt others. Ea

[ccp4bb] CYS-DTT bond

2009-08-21 Thread Bandaranayake, Rajintha
Hi all, I'm working on a structure which has clear density for a DTT molecule bound to a CYS residue. However, I'm having trouble creating a bond between the DTT and CYS. I've tried to add a LINK record with no luck since running the structure through REFMAC just pushes the CYS S away from t

[ccp4bb] I apologize

2009-08-21 Thread Debajyoti Dutta
Hi everybody, I really apologize to every members of CCP4BB for not to give attention to my addressing phrase. It is truly misleading. I swear not to make such bad mistake in future. I am really ashamed for such a deed. Sincerely Debajyoti Dutta On Fri, 21 Aug 2009 21:29:23 +0530

[ccp4bb] I apologize

2009-08-21 Thread Debajyoti Dutta
Hi everybody, I really apologize to every members of CCP4BB for not to give attention to my addressing phrase. It is truly misleading. I swear not to make such bad mistake in future. I am really ashamed for such a deed. Sincerely Debajyoti Dutta On Fri, 21 Aug 2009 21:29:23 +0530

Re: [ccp4bb] I apologize

2009-08-21 Thread James Stroud
On Aug 21, 2009, at 9:50 AM, Debajyoti Dutta > wrote: On Fri, 21 Aug 2009 21:29:23 +0530 wrote >Dear Sir, Please don't assume that all crystallographers are male. Dear Sir, I don't read "REDIFFMAIL" as "Read if Male". I read it "Read if Mail", which it is--so you are allowed to read it no

Re: [ccp4bb] I apologize

2009-08-21 Thread Phoebe Rice
And I apologize for being crabby about it. I realize its hard for people from different traditions and different native tongues to figure out the best way to start an English letter to people you've never met. Original message >Date: Fri, 21 Aug 2009 16:50:28 - >From: Debajyoti Du

[ccp4bb] UCSF Tenure Track Position in Structural Biology

2009-08-21 Thread Dan Minor
University of California, San Francisco Tenure Track Faculty Position in Structural Biology Applications are sought for an Assistant, Associate, or Full Professor position in the Cardiovascular Research Institute (CVRI) at UCSF. Individuals working in the area of structural biology who have

Re: [ccp4bb] Disorder vs configuration alternation

2009-08-21 Thread Jin, Kevin
Dale, In case, I will keep it as alternating configuration. Thanks. Kevin -Original Message- From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of Dale Tronrud Sent: Friday, August 21, 2009 9:37 AM To: CCP4BB@JISCMAIL.AC.UK Subject: Re: [ccp4bb] Disorder vs configurat

[ccp4bb] Protein crystallization position at Roche Nutley, NJ

2009-08-21 Thread Kuglstatter, Andreas
Dear colleagues, I would like to bring the following associate principal scientist position in protein crystallization at Roche Nutley, NJ to your attention. Job description & responsibilities: The candidate's main responsibility will be the design and execution of protein crystallization

[ccp4bb] UCSF Tenure Track Position in Structural Biology

2009-08-21 Thread Dan Minor
University of California, San Francisco Tenure Track Faculty Position in Structural Biology Applications are sought for an Assistant, Associate, or Full Professor position in the Cardiovascular Research Institute (CVRI) at UCSF. Individuals working in the area of structural biology who have