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Date: Thu, 16 May 1996 23:18:09 -0500
To: chemistry@ccl.net
Subject: G: Gaussian workshop
X-Mailer: [XMailTool v3.1.2]



 Centre de Supercomputacio de Catalunya announces a Gaussian Workshop

  INTRODUCTION TO GAUSSIAN:  THEORY AND PRACTICE

 Date: May 30 - 31

 Location: Centre de Supercomputacio de Catalunya ( CESCA )

      Instructors:

        Prof. Michael Robb                  King's College London
        Dr. Carlos Sosa                     Cray Research
        Prof. Juan J. Novoa                 Universitat de Barcelona
        Dr. Alicia Martinez                 CESCA
        Dr. Jose L. Andres                  Universitat de Girona

 For more information:

 http://www.cray.com/PUBLIC/APPS/SERVICES/CHEMISTRY/gaussian.html


From owner-chemistry@ccl.net  Fri May 17 06:53:30 1996
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Date: Fri, 17 May 1996 11:23:53 +0100 (BST)
From: Daniel Mok <dkwm2@cam.ac.uk>
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To: Computational-Chemistry list <chemistry@ccl.net>
Subject: Solid State calculation.
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Dear Netters,

I would like to know is there any free package available to calculate the 
electronic structure of a solid/crystal using Density Functional Theory?

Daniel

********************************************************************************
* Daniel K.W. Mok                                                              *
* E-Mail: dkwm2@cam.ac.uk                                Phone: 01223-336423   *
* Office: Dept. of Chemistry, University of Cambridge     Fax : 01223-336362   *
*         Lensfield Rd., Cambridge CB2 1EW, UK.                                *
********************************************************************************


From rochus@felix.anorg.chemie.tu-muenchen.de  Fri May 17 07:53:31 1996
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From: "Rochus Schmid" <rochus@felix.anorg.chemie.tu-muenchen.de>
Message-Id: <9605171302.ZM23576@felix>
Date: Fri, 17 May 1996 13:02:45 -0600
X-Mailer: Z-Mail (3.2.0 26oct94 MediaMail)
To: chemistry@www.ccl.net
Subject: Summary: processing HPGL-files
Mime-Version: 1.0
Content-Type: text/plain; charset=us-ascii


Dear Netters,

Recently I've posted the following question:

On May 8,  2:17pm, Rochus Schmid wrote:
> Subject: CCL:processing of HPGL-files
> Dear Netters,
>
> I have a question which is (in my eyes) related to CC:
> How to get nice pictures of calculated molecules?
>
> I usually use SCHAKAL to produce HPGL-plots. After that I label these plots
and
> plug in some bond distances or so. This can be done nicely on the PC with
Word
> for Windows. My problem is: I would like to do that on the workstation.
>
> My question is:
> Is there any free software (UNIX) to manipulate HPGL-files or some fileformat
> HPGL can be converted into (e.g. SGI-showcase) to process it?
> Or is there any alternative to SCHAKAL?
> How do you prepare the artwork for publications?
>
> I would be happy about every suggestion.
> Thank you in advance.
>
> Best greatings,
>
> Rochus
>
>-- End of excerpt from Rochus Schmid

I've got a lot of answers. Thanks to (in order of appearance):
Konrad Hinsen, Frank Herrmann, Lutz Ackermann (schoenen Gruss aus Muenchen),
Joerg Hill, Bernhard Eck, Eberhard von Kitzing, and Arne Elofsson.

In summary, most of them suggested to convert to PS or EPS by a converting
program or to produce the pictures with a molecular viewer directly in
PS-format.

molecular viewers (excerpt from Frank Herrmann):

postscript output:
	xmol (good for small molecules)
	rasmol (good for bigger molecules)
	moil-view (sgi)

no postscript output:
	flex
	vmd (sgi, raytracer output)

converter:
	hpgl2ps
	hp2xx	-> cad,em,epic,eps,hpgl,img,mf,pbm,pcl,pcx,rgip,pre


I think, this is essentially the content of the replies. There where also the
suggestions to use either CorrelDraw for UNIX or Photoshop on the Mac to
process Pixel-Graphics (GIF or so).

However, I wanted to keep the vector-graphic produced by SCHAKAL, which is more
intuitive (in my eyes), than the rendered pictures (sorry, that's just my
opinion). I think, the conversion to PS or a Bitmap is a dead end, since it is
very hard to put labels or bond length into the picture after that :-(

Fortunately, someone here at my university pointed me to   xfig . He wrote a
converter from hpgl to the fig-format ;-). The results a very promising. With
the transfig (fig2dev) the processed file is converted to PS and printed.

Hope this helps (someone).

Greetings,

Rochus



-- 

********************************************************************************
Rochus Schmid
Technische Universitaet Muenchen	Tel. 	++49 89 3209 3140
Anorganisch Chemisches Institut 1	Fax. 	++49 89 3209 3473
Prof. W. A. Herrmann			E-mail:	
Lichtenbergstrasse 4			rochus@felix.anorg.chemie.tu-muenchen.de
85747 Garching
********************************************************************************

From owner-chemistry@ccl.net  Fri May 17 11:53:34 1996
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Date: Fri, 17 May 1996 11:01:00 -0400 (EDT)
From: "Dr. Ramiro Arratia Perez" <raperez@valdivia.uca.uach.cl>
Subject: HP850C driver for SGI
To: chemistry@ccl.net
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Dear Netters,
	I am looking for a gopher or web site where I can get an HP850C 
driver for SGI-Indy workstations..

    Many thanks beforehand,
	T

Ramiro Arratia-Perez
Instituto de Quimica
Universidad Austral de Chile
Valdivia 
Chile
FAX (56)63-221599
e-mail: raperez@valdivia.uca.uach.cl 


From rochus@felix.anorg.chemie.tu-muenchen.de  Fri May 17 12:20:11 1996
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From: "Rochus Schmid" <rochus@felix.anorg.chemie.tu-muenchen.de>
Message-Id: <9605171721.ZM25610@felix>
Date: Fri, 17 May 1996 17:21:49 -0600
X-Mailer: Z-Mail (3.2.0 26oct94 MediaMail)
To: chemistry@www.ccl.net
Subject: cff91/ Benzene
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Dear Netters,

Does anyone of you know about a reference or has someone personal experience
concerning the quality of the cff91-forcefield to describe various properties
of Benzene:

	- vdW Dimers (structures and bonding energies)
	- liquid structure (density, CC-rdf ...)
	- energy of evaporation
	- crystal structure

I have a number of exp. ref. and ref. concerning other forcefields.
Among them:

Schlag et al., JACS 1994, 116, 3500. (ab initio)
Pettersson, Liljefors, J. Comput. Chem. 1987, 8, 1139. (MM2/MMP2)
Allinger, Lii, J. Comput. Chem. 1987, 8, 1146. (MM3)
Jorgensen, Severance, JACS 1990, 112, 4768.    (OPLS-type)


I would like to know if someone has studied the performance of cff91.
Maybe the Biosym (now MSI) people have done it when parametrizing?

Thanks in advance.

Rochus

-- 

********************************************************************************
Rochus Schmid
Technische Universitaet Muenchen	Tel. 	++49 89 3209 3140
Anorganisch Chemisches Institut 1	Fax. 	++49 89 3209 3473
Prof. W. A. Herrmann			E-mail:	
Lichtenbergstrasse 4			rochus@felix.anorg.chemie.tu-muenchen.de
85747 Garching
********************************************************************************

From VARNAI@ch.bme.hu  Fri May 17 13:53:34 1996
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From: "Varnai Peter" <VARNAI@ch.bme.hu>
To: chemistry@www.ccl.net
Date:          Fri, 17 May 1996 18:58:28 GMT+100
Subject:       MM Ca2+ parameter
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Dear CCL-ers,

One of my colleague asked me if I knew about MM force-field parameters 
for Ca2+. He would like to integrate these parameters to Macromodel 
5.0. He is also inetersted in about results, experiences, so any 
references are much appreciated. As I couldn't find anything in the 
archives I ask your help.

***Please answer him directly to EFX@oct.bme.hu ***

Thank you.

Peter Varnai

From owner-chemistry@ccl.net  Fri May 17 14:53:34 1996
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From: "Emadeddin Tajkhorshid" <tajkhors@mbp-sgi7.inet.dkfz-heidelberg.de>
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Date: Fri, 17 May 1996 20:38:07 -0600
Reply-To: E.tajkhorshid@dkfz-heidelberg.de
X-Mailer: Z-Mail (3.2.0 26oct94 MediaMail)
To: chemistry@ccl.net
Subject: Bacteriorhodopsin and trans retinal ?
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Dear CCLers

I wonder if somebody knows or has heard about a 3D model of
bacteriorhodopsin with TRANS form of retinal in it (Special interest
in hydrated models).

Please send the responses directly to my address. I will summarize
the results, if any, and send them to the net.

Thanx
emad

-- 
E. Tajkhorshid				
German Cancer Research Center; DKFZ	Tel: +49 6221 42 2339
Dept. Molecular Biophysics (0810)	FAX: +49 6221 42 2333
P.O.Box 101949				Email: E.Tajkhorshid@dkfz-heidelberg.de
69009 Heidelberg, FRG
**********************************************************************
* It is nice to be important, but it is more important to be nice!   *
**********************************************************************

From owner-chemistry@ccl.net  Fri May 17 15:02:41 1996
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From: rickr@scripps.edu (Rick Ross)
Message-Id: <9605171852.AA20186@aries.Scripps.EDU>
To: chemistry@ccl.net
Subject: Ind_App_Comp_Chem_Call_for_Papers


Call for Papers

Industrial Applications of Computational Chemistry




1997 Spring National American Chemical Society 
Meeting
Computers in Chemistry Division
April 13-18, 1997
San Francisco, California




Papers sought in all areas including applications such 
as catalysis, chemicals, coatings, engineering and/or 
theoretical chemical aspects of process design and 
modeling, glass, lubricants, petroleum, polymers, and 
other materials-orientated areas.





Please send abstract (on ACS form) or initial note of interest with 
title/subject area to:

Dr. Anne M. Chaka, The Lubrizol Corporation, 29400 Lakeland 
Boulevard, Wickliffe, OH  44092-2298; email: chaka@lubrizol.com.

or

Dr. Richard B. Ross, PPG Industries, P.O. Box 9, Allison Park, PA 
15101; Voice: 412-492-5359; email: rbross@ppg.com.


Abstracts due on official ACS forms no later than October 25, 1996. 


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Date: Fri, 17 May 1996 14:01:40 -0400 (EDT)
From: Marcella Madrid <mm6n+@andrew.cmu.edu>
To: chemistry@ccl.net
Subject: CCL:sequence analysis workshops offered at the PSC


                 NUCLEIC ACID AND PROTEIN SEQUENCE ANALYSIS
                    WORKSHOPS FOR BIOMEDICAL RESEARCHERS
                      PITTSBURGH SUPERCOMPUTING CENTER

Biomedical Workshops offered by the Pittsburgh Supercomputing Center 
typically consist of theoretical lectures taught by leaders in the 
respective scientific discipline,  and extensive hands-on computer
sessions. During the computer sessions, participants are able to work
on the examples provided or on their own experimental data. 

Attendance is limited to 20 participants to allow one-on-one instruction
and encourage scientific interactions and discussions. Researchers 
nationwide are invited to apply. 

For additional information, please refer to
        http://www.psc.edu/biomed/workshops.html 

CONTACT INFORMATION: Nancy Blankenstein, Biomedical Program Assistant, 
(412)268-4960, blankens@psc.edu

The following two Sequence Analysis workshops will be offered this summer:

*********NUCLEIC ACID AND PROTEIN SEQUENCE ANALYSIS: June 9-14.**************
Emphasis will be on alignment of and pattern extraction from multiple 
sequences. Topics to be discussed include 
 Comparing and aligning sequences
 Identifying informative patterns in a set of sequences
 Using extracted informative patterns to identify related sequences. 

Leaders are:
Dr. Gary Churchill, Cornell University; 
Dr. Michael Gribskov, San Diego Supercomputer Center and 
Dr. Hugh B. Nicholas Jr., Pittsburgh Supercomputing Center. 

Financial Information: 
A limited number of grants to cover travel and/or hotel accommodations 
are available for U.S. academic participants. ALL PARTICIPANTS ARE 
REQUIRED TO PAY A $135 REGISTRATION FEE UPON ACCEPTANCE INTO THE  
WORKSHOP. Complimentary breakfast and lunches will be provided.

APPLICATION DEADLINE: May 17, 1996.


*****ADVANCED NUCLEIC ACID AND PROTEIN SEQUENCE ANALYSIS: August 25-28.******
Open to researchers who have previously attended one of the PSC's annual
"Nucleic Acid and Protein Sequence Analysis" workshops or who have
appreciable experience with computerized sequence analysis.  The workshop
will build on previous experience to teach techniques for analyzing families
and superfamilies of genes and proteins.

Leaders are:
Dr Stephen H. Bryant, National Center for Biotechnology Information, National
     Library of Medicine
Dr. Michael Gribskov, San Diego Supercomputer Center and
Dr. Hugh B. Nicholas Jr., Pittsburgh Supercomputing Center.

Financial Information :
Hotel accommodations during the workshop for researchers affiliated
with U.S. academic institutions will be paid by our NIH grant.
Complimentary breakfast and lunches will also be provided. There is 
NO REGISTRATION FEE for this workshop. All other costs incurred in 
attending (travel, other meals, etc.) are the responsibility of the
individual participant. 

APPLICATION DEADLINE: July 10, 1996.


                                **********

                     PITTSBURGH SUPERCOMPUTING CENTER
                   WORKSHOPS FOR BIOMEDICAL RESEARCHERS

                                APPLICATION

Workshop I am interested in attending:_______________________________________

Name:          ______________________________________________________________

Affiliation:   ______________________________________________________________

Address:       ______________________________________________________________
               (Business) 

               ______________________________________________________________

               ______________________________________________________________
               (Home)

               ______________________________________________________________

Telephone:  ____________________________         ____________________________
                   (Business)                                (Home)

*Social Security Number:  _______-_____-_______ Citizenship:_________________


Electronic Mail Address:_____________________________________________________

Status: ___Graduate  ___Post-doctoral Fellow  ___Faculty  ___Other (specify)

Please indicate specifically any special housing, transportation or dietary
arrangements you will need: __________________________________________

How did you learn about this workshop:_______________________________________

REQUIREMENTS:

Applicants must submit a completed application form and a cover letter.  The
letter should describe, in one or two paragraphs, the sequence analysis
problems encountered in your research, and how participating in the workshop
will enhance this research.  Please include a brief statement describing your
level of experience with computers.  Faculty members, staff and post-docs
should provide a curriculum vitae.  Graduate students must have a letter
of recommendation from a faculty member.

Please return all application materials to:
          Biomedical Workshop Applications Committee
          Pittsburgh Supercomputing Center
          4400 Fifth Avenue, Suite 230C
          Pittsburgh, PA 15213

Direct inquiries to: Nancy Blankenstein, blankens@psc.edu or 412/268-4960.

*Disclosure of Social Security Number is voluntary.

PSC does not discriminate on the basis of race, color, religion, sex, age,
creed, national or ethnic origin, or handicap.
 

From owner-chemistry@ccl.net  Fri May 17 19:53:38 1996
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Date: Fri, 17 May 1996 23:46:41 GMT
From: vandyke@xhost5.tripos.com (Chris Van Dyke)
Message-Id: <199605172346.XAA12752@rigel.tripos>
To: CHEMISTRY@ccl.net
Subject: SPL archive


Tripos now maintains a SYBYL Programming Language (SPL) archive on its Web 
page.  SYBYL users are invited to peruse examples of SPL scripts from fellow 
scientists, and are encouraged to submit scripts to the archive for use by 
others.  Visit the Tripos Web Site at

http://www.tripos.com

The SPL archive is located under the Support & Training listings.  Instructions
for submission of scripts to the archive are also given here.


Chris Van Dyke, Ph.D.
Scientific Training Coordinator
Tripos, Inc.

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	 id KAA28691; Sat, 18 May 1996 10:57:35 +0900
From: "Sang Soo Pak" <pakman@donald.hanhyo.co.kr>
Message-Id: <9605181057.ZM28689@donald.hanhyo.co.kr>
Date: Sat, 18 May 1996 10:57:35 +0000
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To: CHEMISTRY@ccl.net
Subject: CCL:ChemSite, Educational Modeling Software for PC
Cc: sspak@donald.hanhyo.co.kr
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Dear Netter,

I've come across a neat PC program called ChemSite by Pyramid Learning LLC
(pyramidl@netcom.com).

It does everything from sketcher/3D converter, mechanics, dynamics, to ligand
docking and of course fancy graphics. All these for list price of $149.99.
Probably there is big discount for academics.

It runs on Windows or Windows95.
Contact Pryamid Learning LLC at pyramidl@netcom.com  or it's author Professor
David Michael at michael@chemistry.ucsc.edu to find out more



-- 
Sang Soo Pak

Molecular Design Laboratory             Hanhyo Institute of Technology
Hanhyo Institute of Technology          Kukje Center Building, 22th Floor
San 6, Daeya-Dong, Shihung-Shi,         191 Hankang-Ro 2 Ka, Yongsan-Ku
Kyungki-Do, 429-010, Korea              Seoul, 140-702, Korea

Tel: +82-32-691-2955                    Tel: +82-2-791-1701
Fax: +82-32-692-0415                    Fax: +82-2-791-1705
e-mail: sspak@donald.hanhyo.co.kr
Web: http://www.hanhyo.co.kr


