Re: [ccp4bb] PLEASE I NEED YOUR HELP.
Try unrestrained refinement first. BR From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of Ming Zhou Sent: Friday, December 04, 2009 12:24 AM To: CCP4BB@JISCMAIL.AC.UK Subject: [Bulk] [ccp4bb] PLEASE I NEED YOUR HELP. Dear, How are you today? May this emergency appeal finds you well,i am sorry i do not inform you about my travel to Africa for a program. The program is taking place in three major Countries in Africa which includes Ghana,Nigeria and South Africa. It has been a very sad and bad moment for me that the condition i found myself is so intoxicated to explain.I am stranded in Nigeria because I forgot my little bag in a taxi where my Atm card,all the money i have with me and some important documents are,i am so confussed right now that i do not know what to do or where to go.Please i need your urgent help to send some money to me so that i could be able to come back home. Please i need the sum of $1,500USD as a loan to enable me sort-out myself and confirm my Basic Travelling Allowance fees back home,but if you cannot come up with all the requested amount due to the short notice, kindly go ahead and send me any amount you can and email me the transfer details. I will be so grateful to receive it and i promise to pay back the money to you as soon as am back home. Kindly understand that i am in a very tight and horrible situation at the moment that i could not even afford to take a good meal due to the fact that i do not have a cent with me. I know you will never disappoint me and that is why i have to contact you in this regard and please as you endeavor to help me with this money i don't mean you should disclose my predicament to anybody for my personal reasons till when am successfully back home. However,it is not compulsory you will send me the money but if my situation and our good relationship touches you quickly proceed to any of the western union money transfer local stores or post office around you and transfer me the money as soon as you have received this emergency appeal. Western union money transfer is the most convenience and safety way to receive money here without any delay or problem. Below is my information where to send the money to me through western union. Receivers Name: Ming Zhou Address: 45 Awolowo Road Ikoyi City: Lagos Island State: Lagos Zip Code:23401 Country: Nigeria After you have sent the money, kindly email me the western union transfer details such as: MTCN(Money transfer control number) Test Question: What is your year of birth? Answer: 1954 Amount Needed: $1,500USD I will check my email soonest to pick up the western union transfer details to enable me come back home with the next available flight and i will need the transfer # MTCN (money transfer control number) as soon as possible. Thanks, Ming _ Chat with Messenger straight from your Hotmail inbox. Check it out http://www.microsoft.com/windows/windowslive/hotmail_bl1/hotmail_bl1.aspx?o cid=PID23879::T:WLMTAGL:ON:WL:en-ww:WM_IMHM_4:092009
Re: [ccp4bb] Bad geometry for alt. conformation refined in Refmac5
Ian Tickle schrieb: Before you all go away and install the latest Intel compilers to fix this bug - don't bother! We just installed the latest version (ifort 11.3) and it has the same bug! We plan to file a bug report with Intel. Ian, I just checked my older versions of ifort: ifort 11.0.081 (January 2009) indeed shows the bug. I also tried 11.1.056 and that (as the latest 11.1.059; see my last email) does not show the bug. So it was fixed sometime in the 11.1 series. Which 11.3 do you mean - not even 11.2 is announced? best, Kay -- Kay Diederichshttp://strucbio.biologie.uni-konstanz.de email: kay.diederi...@uni-konstanz.deTel +49 7531 88 4049 Fax 3183 Fachbereich Biologie, Universität Konstanz, Box M647, D-78457 Konstanz This e-mail is digitally signed. If your e-mail client does not have the necessary capabilities, just ignore the attached signature smime.p7s. smime.p7s Description: S/MIME Cryptographic Signature
[ccp4bb] Map averaging question
Hi, I have 20 identical monomers in my asu of a 2.5A structure. We have previously model built all twenty monomers and used strict NCS in the refinement, however I would like to compare this with the maps generated by building one monomer into an averaged map and then replicating it nineteen times for the refinement. On a previous structure with just two monomers I did this to good effect using coot to make my average map and then pymol to replicate the second monomer, however with twenty monomers things are a bit more complicated. So: 1. Can the map averaging function in coot cope with averaging across twenty monomers or is there another better program to use? 2. What program can I use to generate the nineteen NCS symmetry operators and then apply them to the monomer I am building? I'm guessing I'll need a script to do this - is there a webpage/tutorial that explains how to do what I imagine must be a fairly common procedure? Thanks, Simon
Re: [ccp4bb] Map averaging question
Simon Kolstoe wrote: Hi, I have 20 identical monomers in my asu of a 2.5A structure. We have previously model built all twenty monomers and used strict NCS in the refinement, however I would like to compare this with the maps generated by building one monomer into an averaged map and then replicating it nineteen times for the refinement. On a previous structure with just two monomers I did this to good effect using coot to make my average map and then pymol to replicate the second monomer, however with twenty monomers things are a bit more complicated. So: 1. Can the map averaging function in coot cope with averaging across twenty monomers or is there another better program to use? 2. What program can I use to generate the nineteen NCS symmetry operators and then apply them to the monomer I am building? I’m guessing I’ll need a script to do this - is there a webpage/tutorial that explains how to do what I imagine must be a fairly common procedure? Thanks, Simon Hi Simon, NCS symmetry operators: It all depends on the averaging program you want to use. For dm, I've used superpose (in ccp4i). For DEMON/ANGEL, I use the program SUPPOS (provides matrices and vectors in the correct format). Fred.
Re: [ccp4bb] Map averaging question
Simon Kolstoe wrote: 1. Can the map averaging function in coot cope with averaging across twenty monomers Yup. Just tries it with 1c9s (22-fold ncs) The 'all' button is handy for turning off the 19 maps you aren't interested in, then turning on the one you are. The averaged density will appear over the A chain. or is there another better program to use? :) 2. What program can I use to generate the nineteen NCS symmetry operators and then apply them to the monomer I am building? I’m guessing I’ll need a script to do this - is there a webpage/tutorial that explains how to do what I imagine must be a fairly common procedure? Coot'll do it all for you - no script or matrices required. Extensions/NCS/Copy NCS chain. Kevin p.s. Coot 0.6 out today!!!
[ccp4bb] Post-Doctroal position
An opening for a Post-doctoral position is available starting January 15th in the Structural Basis of Genome Integrity Group at the Spanish National Cancer Research Centre in Madrid (CNIO). The ideal candidate should have a PhD in structural biology, biochemistry or a related field and should have experience in molecular biology, protein expression and purification. Additional experience in macromolecular X-ray crystallography and/or single-particle electron microscopy is highly desirable. Experience with protein expression in eukaryotic systems is an advantage. Fluency in English required. The research focuses on structural and functional aspects of genome integrity, with particular emphasis on employing X-ray crystallography and single-particle electron microscopy to elucidate the structures and understand the function of large macromolecular complexes involved in DNA recombination and repair. The candidate will work with a team of highly motivated structural biologists and biochemists and collaborate with cell biology and computational groups at the CNIO. The Structural Basis of Genome Integrity Group is a newly established research group led by Dr. Santiago Ramon-Maiques who recently moved to the CNIO from the Institute of Biomedicine of Valencia, and previously worked in the group of Dr. Wei Yang at the National Institutes of Health, in Bethesda. We offer: o An appointment for a period of one year with the possibility of extension up to five years. o A competitive salary and an attractive benefits package. o Access to state-of-the-art facilities for X-ray crystallography and electron microscopy. o The opportunity to be part of a European Cancer Research Centre of excellence that successfully combines basic and applied research. Applications can be sent at any time, preferably before 1st of January 2010. Applicants should submit a CV, a statement of research interests, and the names and contact information of two references to Santiago Ramon-Maiques (sra...@ibv.csic.es). All enquiries and applications will be treated confidentially.
[ccp4bb] Positions available in Membrane Protein Structural Biology
The School of Biological Sciences at Nanyang Technological University in Singapore is seeking outstanding scientists for functional and structural studies of integral membrane proteins. The School hosts a number of research groups specialized in working with membrane proteins using methodologies including X-ray crystallography, NMR spectroscopy, Surface Plasmon Resonance and electrophysiology. The research groups have access to state-of-the-art instrumentations and robotics to facilitate high-throughput protein expression and purification, as well as further protein characterizations. The target proteins include membrane proteins from bacteria, viruses as well as human with high medical impact. The studies are performed on both individual proteins, but also include protein-protein interactions within important signalling and enzymatic pathways. The positions are available at various levels including postdoctoral fellows, research associates and graduate students. The applicants must have relevant and strong background in at least one of the following areas, in order to be considered: * Membrane protein expression and purification * Protein complex analysis and characterizations * Drug-screening and interaction studies * High-throughput protein production * Recombinant molecular biology * Biophysics (SPR, ITC, AUC, etc) * X-ray crystallography * NMR spectroscopy * Electrophysiology The positions are initially for 2 years with the possibility of extension. Competitive salaries are offered based on individual merits. The applicants should state their interest and what kind of position they are applying for in a cover letter and send their applications, along with their CV and the name and contact information of three references, by 15 January 2010 to: position@gmail.com mailto:position@gmail.com NB! Only applications sent to the above mentioned address will be considered. Direct reply to this email account WILL NOT be considered! The research groups are headed by: Professor Pär Norldund Associate Professor Jaume Torres Associate Professor Konstantin Pervushin Associate Professor Julien Lescar Associate Professor Said Eshaghi Assistant Professor Tobias Cornvik CONFIDENTIALITY: This email is intended solely for the person(s) named. The contents may be confidential and/or privileged. If you are not the intended recipient, please delete it, notify us, and do not copy or use it, nor disclose its contents. Thank you. Towards A Sustainable Earth: Print Only When Necessary
[ccp4bb] Memory allocation error in phaser - Mac os
Dear All: How to increase the memory size (?) to avoid the following error? *** * Information from CCP4Interface script *** The program run with command: /sw/share/xtal/ccp4-6.1.1/bin/phaser has failed with error message phaser(1393) malloc: *** vm_allocate(size=402313216) failed (error code=3) phaser(1393) malloc: *** error: can't allocate region phaser(1393) malloc: *** set a breakpoint in szone_error to debug phaser(1393) malloc: *** vm_allocate(size=402313216) failed (error code=3) phaser(1393) malloc: *** error: can't allocate region phaser(1393) malloc: *** set a breakpoint in szone_error to debug *** Thanks Subbu
Re: [ccp4bb] How to reduce free-R factor
Lionel Mourey Institut de Pharmacologie et de Biologie Structurale CNRS - Université de Toulouse 205 route de Narbonne 31077 Toulouse France Tél : 05 61 17 54 36 Mobile : 06 73 50 95 51 Fax : 05 61 17 59 94 E-mail : lionel dot mourey at ipbs dot fr - Message d'origine - De: Pankaj Chauhan pankajimt...@gmail.com Env: vendredi 4 décembre 2009 06:07 À: CCP4BB@JISCMAIL.AC.UK Objet: [ccp4bb] How to reduce free-R factor [Le message original intégral n'est pas inclus]
Re: [ccp4bb] PLEASE I NEED YOUR HELP.
Best story I've heard on scamming the scammers appeared on BBC some years ago. Fortunately, it was easy to find it. Take a look at http://news.bbc.co.uk/2/hi/africa/3887493.stm Enjoy, Nukri Ruslan Sanishvili (Nukri), Ph.D. GM/CA-CAT Biosciences Division, ANL 9700 S. Cass Ave. Argonne, IL 60439 Tel: (630)252-0665 Fax: (630)252-0667 rsanishv...@anl.gov -Original Message- From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of David Briggs Sent: Friday, December 04, 2009 2:48 AM To: CCP4BB@JISCMAIL.AC.UK Subject: Re: [ccp4bb] PLEASE I NEED YOUR HELP. Given he is so intoxicated to explain I suggest that more slightly more restrained refinement might be in order Forward Fee 419 scam FAIL. He didn't even offer me the sum of $100,000,000 (ONE HUNDRED MILLION US DOLLAR) as a sweetener to the deal... I really don't see the motivation in sending this guy the cash - still - we could have a whip 'round at ccp4 workshop in Jan? (A Physics pal of mine had more fun baiting FF419ers - http://www-zeus.desy.de/~lightwd/ff419.html ) D 2009/12/4 Bernhard Rupp b...@ruppweb.org: Try unrestrained refinement first. BR From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of Ming Zhou Sent: Friday, December 04, 2009 12:24 AM To: CCP4BB@JISCMAIL.AC.UK Subject: [Bulk] [ccp4bb] PLEASE I NEED YOUR HELP. Dear, How are you today? May this emergency appeal finds you well,i am sorry i do not inform you about my travel to Africa for a program. The program is taking place in three major Countries in Africa which includes Ghana,Nigeria and South Africa. It has been a very sad and bad moment for me that the condition i found myself is so intoxicated to explain.I am stranded in Nigeria because I forgot my little bag in a taxi where my Atm card,all the money i have with me and some important documents are,i am so confussed right now that i do not know what to do or where to go.Please i need your urgent help to send some money to me so that i could be able to come back home. Please i need the sum of $1,500USD as a loan to enable me sort-out myself and confirm my Basic Travelling Allowance fees back home,but if you cannot come up with all the requested amount due to the short notice, kindly go ahead and send me any amount you can and email me the transfer details. I will be so grateful to receive it and i promise to pay back the money to you as soon as am back home. Kindly understand that i am in a very tight and horrible situation at the moment that i could not even afford to take a good meal due to the fact that i do not have a cent with me. I know you will never disappoint me and that is why i have to contact you in this regard and please as you endeavor to help me with this money i don't mean you should disclose my predicament to anybody for my personal reasons till when am successfully back home. However,it is not compulsory you will send me the money but if my situation and our good relationship touches you quickly proceed to any of the western union money transfer local stores or post office around you and transfer me the money as soon as you have received this emergency appeal. Western union money transfer is the most convenience and safety way to receive money here without any delay or problem. Below is my information where to send the money to me through western union. Receivers Name: Ming Zhou Address: 45 Awolowo Road Ikoyi City: Lagos Island State: Lagos Zip Code:23401 Country: Nigeria After you have sent the money, kindly email me the western union transfer details such as: MTCN(Money transfer control number) Test Question: What is your year of birth? Answer: 1954 Amount Needed: $1,500USD I will check my email soonest to pick up the western union transfer details to enable me come back home with the next available flight and i will need the transfer # MTCN (money transfer control number) as soon as possible. Thanks, Ming Chat with Messenger straight from your Hotmail inbox. Check it out -- Science knows it doesn't know everything...otherwise it would stop. - Dara O'Briain David C. Briggs PhD Father Crystallographer http://drdavidcbriggs.googlepages.com/home Skype: DocDCB
[ccp4bb] Postdoctoral position at the Goethe University Frankfurt- Institute of Biochemistry
Post-doc Position at the Institute of Biochemistry at the Goethe University Frankfurt, Germany I am looking for an experienced crystallographer at the post-doctoral level with interest to work on structures of membrane transport machineries, in particular multidrug efflux proteins. The lab is well-equipped including robotics to facilitate overproduction and crystallization of membrane proteins and is embedded in the Cluster of Excellence Frankfurt Macromolecular Complexes ( http://www.cef-mc.de www.cef-mc.de). The Institute of Biochemistry is located in the Biocenter on a young and vibrant campus at the outskirts, yet near to the city of Frankfurt. For more information, please visit the web page: http://www.biochem.uni-frankfurt.de/index.php?id=7 http://www.biochem.uni-frankfurt.de/index.php?id=7 Interested candidates can send their CV (closing date 04.01.2010) to: mailto:p...@em.uni-frankfurt.de p...@em.uni-frankfurt.de Klaas Martinus Pos, Ph.D. Professor of Membrane Transport Machineries Cluster of Excellence Frankfurt - Macromolecular Complexes Institute of Biochemistry Goethe-University Frankfurt am Main Max-von-Laue-Str. 9 D-60438 Frankfurt am Main Germany Tel: +49-69-798 29251 Fax: +49-69-798 29201 E-Mail: mailto:p...@em.uni-frankfurt.de p...@em.uni-frankfurt.de Website: http://www.biochem.uni-frankfurt.de/index.php?id=7 http://www.biochem.uni-frankfurt.de/index.php?id=7 http://www.sfb807.de/index.php?id=pos http://www.sfb807.de/index.php?id=pos
Re: [ccp4bb] Refining residues as rigid bodies
You can do it in phenix.refine. The prototype is:
for trial in trials:
phenix.refine model.pdb data.mtz main.random_seed=random_value
modify_start_model.adp.shake=true output.prefix=str(random_value)
where each refinement will start with the original B-factors that are
shaken by a certain value.
Pavel.
PS You can use phenix.pdbtools to do any manipulations on your model,
such as shaking, setting, shifting of coordinates, b-factors,
occupancies, etc.
On 12/3/09 4:05 AM, MARTYN SYMMONS wrote:
Discussing with Fred Vellieux offlist I suggested the following: would
it be useful to have a sort of 'simulated annealing' of the B-factor
values? - in refinement I often try resetting them to higher values
(Moleman has a function for this I think) and then see which ones
refine back down nicely - but it would be good to have some sort of
randomization method - that would be a test of how much the values are
inherited from the modelling early on - say from the MR probe model
for example.
We could do multiple B-factor refinements with different starting
kicks to the values and look for the best final Rfree or some measure
of map quality?
Martyn
Martyn F. Symmons
Cambridge
'Chan fhiosrach mur feòraich.' Gaelic proverb - Nothing asked, nothing
learned.
*From:* Pavel Afonine pafon...@lbl.gov
*To:* CCP4BB@JISCMAIL.AC.UK
*Sent:* Wednesday, 2 December, 2009 22:52:45
*Subject:* Re: [ccp4bb] Refining residues as rigid bodies
Hi,
you can do similar thing (that is resulting in similar outcome) in
phenix.refine by increasing the weight on ADP restraints term.
Example: increase wu or decrease wxu_scale. Although I believe a
regular refinement of individual isotropic ADPs should normally work
just fine at 3A resolution in phenix.refine.
Pavel.
On 12/1/09 11:18 PM, Frederic VELLIEUX wrote:
If the problem is B-factor refinement, you can do that easily at low resolution
with CNS. You just give tight restraints.
You modify the file bindividual.inp
This section:
{* target sigma values for restrained B-factor refinement *}
{* mainchain bonds *}
{===} bsig_main=1.5;
{* mainchain angles *}
{===} asig_main=2.0;
{* sidechain bonds *}
{===} bsig_side=2.0;
{* sidechain angles *}
{===} asig_side=2.5;
I cannot remember in which direction the values have to go. I think up. I have
done this with a very low resolution structures (4.5 A?) a few years ago, you
get smoothly varying B values, very tightly restrained. I do not think we
published that structure, we obtained a higher resolution structure later (I
don't think the referees would have been very happy seeing B factor refinement
at low resolution). But it worked.
Fred.
Message du 01/12/09 23:51
De : Jason C Porta
A : CCP4BB@JISCMAIL.AC.UK
Copie à :
Objet : Re: [ccp4bb] Refining residues as rigid bodies
Basically my reasoning for doing this is a low data-to-parameter ratio, which
makes B-factor refinement unfeasible. So far I have had nice results with
breaking the complex into rigid subdomains. So i was basically just thinking of
a way I could refine the structure best, without using too many parameters.
I see now how this can be done in Phenix. I will give it a try.
Thanks for all of your suggestions!
[ccp4bb] Structural Biologist - permanent position in Central London
Structural Biologist - permanent position Central London, UK Cancer Research Technology (CRT) is a specialist oncology company which advances discoveries arising from Cancer Research UK and other prestigious oncology focused organizations into potential therapies for the benefit of cancer patients. CRT is seeking to recruit a highly motivated protein scientist / structural biologist to join our X-ray structure determination team. The team has access to state-of-the-art data collection and crystallization facilities within the School of Crystallography, Birkbeck College, London and is adjacent to CRT's Discovery Laboratories within the Wolfson Institute of Biomedical Research, University College London. The successful candidate should have experience in one or more of the following areas: - Production and characterization of crystallization-grade protein for structural analysis - Crystallization screening and optimization of protein-ligand complexes - X-ray data collection and structure determination You should ideally be qualified to PhD level or equivalent. In addition, you will possess excellent communication and organisation skills, and will be able to contribute positively to interactive collaborations within CRT, Cancer Research UK laboratories and other external organisations. Previous involvement in projects relating to oncology and experience within a pharmaceutical environment would be desirable. This is a permanent position with significant opportunity to influence the development of new cancer therapeutics and will suit a highly talented individual with strong interpersonal skills. Please note that applications will only be accepted from candidates who have proof of their right to work in the U.K. To apply, please send a copy of your CV and a covering letter, quoting the reference number XR1209, to the Head of Medicinal Chemistry by email to crtrecruitm...@cancertechnology.com mailto:crtrecruitm...@cancertechnology.com No Agencies Closing Date: 8th January 2010 CRT is an equal opportunities employer Andrew Turnbull, PhD Structural Biologist Cancer Research Technology Ltd Birkbeck College University of London Malet Street London WC1E 7HX UK Tel: +44 (0)20 7631 6837 Fax: +44 (0)20 7631 6803 This communication is from Cancer Research Technology Limited. Our website is at www.cancertechnology.com. We are a company registered in England Wales under number 1626049 and wholly owned by Cancer Research UK (registered charity no. 1089464). Our registered address is Sardinia House, Sardinia Street, London WC2A 3NL England. Our central telephone number is +44 (0) 20 7269 3640. This communication and any attachments contain information which is confidential and may also be privileged. It is for the exclusive use of the intended recipient(s). If you are not the intended recipient(s) please note that any form of disclosure, distribution, copying or use of this communication or the information in it or in any attachments is strictly prohibited and may be unlawful. If you have received this communication in error, please notify the sender and delete the email and destroy any copies of it. E-mail communications cannot be guaranteed to be secure or error free, as information could be intercepted, corrupted, amended, lost, destroyed, arrive late or incomplete, or contain viruses. We do not accept liability for any such matters or their consequences. Anyone who communicates with Cancer Research Technology Limited by e-mail is taken to accept the risks in doing so. The views, opinions, and judgements expressed in this message are solely those of the author, and are neither given nor endorsed by Cancer Research Technology Limited
[ccp4bb] Electron density improvement with resolution graphic
Hi all- I recall seeing a long time ago a figure which showed the progressive improvement of electron density as one increases resolution, say from 6 to 3.5 to 2A. I believe I've seen two versions- one a larger scale pic showing the ability to model side chains of alpha helices at higher resolutions and the other a simpler graphic of a tyrosine aromatic ring showing the electron density hole in the middle of the ring once near atomic resolution maps are obtained. Does anyone have, in their teaching notes or a textbook or presentation, a graphic which displays this? I need it for a talk this weekend and Google searches have come up blank. If all else fails, I can generate it myself...(lazy sigh) Thanks in advance- Brad
Re: [ccp4bb] Electron density improvement with resolution graphic
You can find one here on the Cambridge X-ray crystallography course website: http://www-structmed.cimr.cam.ac.uk/Course/Fitting/fittingtalk.html On Fri, Dec 4, 2009 at 8:25 PM, Brad Bennett bradbennet...@gmail.comwrote: Hi all- I recall seeing a long time ago a figure which showed the progressive improvement of electron density as one increases resolution, say from 6 to 3.5 to 2A. I believe I've seen two versions- one a larger scale pic showing the ability to model side chains of alpha helices at higher resolutions and the other a simpler graphic of a tyrosine aromatic ring showing the electron density hole in the middle of the ring once near atomic resolution maps are obtained. Does anyone have, in their teaching notes or a textbook or presentation, a graphic which displays this? I need it for a talk this weekend and Google searches have come up blank. If all else fails, I can generate it myself...(lazy sigh) Thanks in advance- Brad -- Jim Fairman, Ph D. Post-Doctoral Fellow National Institutes of Health - NIDDK Cell: 1-865-748-8672 Lab: 1-301-594-9230 E-mail: fairman@gmail.com james.fair...@nih.gov
Re: [ccp4bb] Electron density improvement with resolution graphic
James Holton has a great little movie showing how electron density changes with decreasing resolution: http://ucxray.berkeley.edu/~jamesh/movies/resolution.mpeg Jon On Dec 4, 2009, at 5:37 PM, Jim Fairman wrote: You can find one here on the Cambridge X-ray crystallography course website: http://www-structmed.cimr.cam.ac.uk/Course/Fitting/fittingtalk.html On Fri, Dec 4, 2009 at 8:25 PM, Brad Bennett bradbennet...@gmail.com wrote: Hi all- I recall seeing a long time ago a figure which showed the progressive improvement of electron density as one increases resolution, say from 6 to 3.5 to 2A. I believe I've seen two versions- one a larger scale pic showing the ability to model side chains of alpha helices at higher resolutions and the other a simpler graphic of a tyrosine aromatic ring showing the electron density hole in the middle of the ring once near atomic resolution maps are obtained. Does anyone have, in their teaching notes or a textbook or presentation, a graphic which displays this? I need it for a talk this weekend and Google searches have come up blank. If all else fails, I can generate it myself...(lazy sigh) Thanks in advance- Brad -- Jim Fairman, Ph D. Post-Doctoral Fellow National Institutes of Health - NIDDK Cell: 1-865-748-8672 Lab: 1-301-594-9230 E-mail: fairman@gmail.com james.fair...@nih.gov
Re: [ccp4bb] Electron density improvement with resolution graphic
This could be useful: http://www.ruppweb.org/Xray/resolution.html BR From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of Brad Bennett Sent: Friday, December 04, 2009 5:26 PM To: CCP4BB@JISCMAIL.AC.UK Subject: [ccp4bb] Electron density improvement with resolution graphic Hi all- I recall seeing a long time ago a figure which showed the progressive improvement of electron density as one increases resolution, say from 6 to 3.5 to 2A. I believe I've seen two versions- one a larger scale pic showing the ability to model side chains of alpha helices at higher resolutions and the other a simpler graphic of a tyrosine aromatic ring showing the electron density hole in the middle of the ring once near atomic resolution maps are obtained. Does anyone have, in their teaching notes or a textbook or presentation, a graphic which displays this? I need it for a talk this weekend and Google searches have come up blank. If all else fails, I can generate it myself...(lazy sigh) Thanks in advance- Brad
[ccp4bb] Warren Obituary
To the Warren Memorial raffle donators: Thank you for your support and please read the obituary accessible from my site. http://www.ruppweb.org/Garland/Warren_raffle.htm Thx,BR - Bernhard Rupp US National Academy of Sciences Committee for Crystallography 001 (925) 209-7429 +43 (676) 571-0536 b...@qedlife.com b...@ruppweb.org http://www.ruppweb.org/ - The hard part about playing chicken is to know when to flinch -
