From sanja@indigo.irb.hr  Fri Mar 11 04:40:25 1994
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Date: Thu, 10 Mar 94 09:57:18 +0100
Message-Id: <9403100857.AA07569@indigo.irb.hr>
To: CHEMISTRY@ccl.net
Subject: rate constants




Hi,
I am looking for a program to calculate the rate constants
from transition state theory using structures, vibrational frequences and
 total energies for the reactants and transition states calculated
by ab initio calculations. I am interesting in some public domain or
 commercial software. 
Thanx

   Sanja
   sanja@indigo.irb.hr


From Steve_Maginn@msicam.co.uk  Fri Mar 11 04:43:00 1994
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Date: 11 Mar 1994 09:25:16 U
From: Steve Maginn <Steve_Maginn@msicam.co.uk>
Subject: Re: CCL-Labeling of CERIUS m
To: CCL bulletin board <chemistry@ccl.net>
Message-ID: <"relay2.pip.820:11.02.94.09.21.30"@pipex.net>


        Reply to:   RE>CCL:Labeling of CERIUS mode
In reply to Howard Reese's question - in CERIUS version 3.2, there is no way of
doing this, but in the about-to-be released successor, CERIUS2, there is a
comprehensive annotation facility that allows the user to add text in a variety
of fonts and colours, add arrows and other means of highlighting.

Steve Maginn,
Applications Support Scientist,
MSI Cambridge, UK

--------------------------------------
Date: 10/3/94 7:39 pm
To: Steve Maginn
From: Howard Reese
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Fellow CERIUS users,

Lately, I've been using Molecular Simulations CERIUS package to make slides 
of molecules that are of interest to our group.  I would like to add titles 
and a few lines of data to the models, but there doesn't seem to be any way
to annotate a CERIUS model.  Does anybody have any suggestions on how to do
this?

Thanks

Howie Reese

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From mitchell_t%frgen.dnet@sb.com  Fri Mar 11 05:40:32 1994
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From: <mitchell_t%frgen.dnet@sb.com>
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To: "chemistry@ccl.net"%INET.dnet@sb.com
Subject: Estimating PKa of amines.....



I have published results showing good correlations between PKa and E-
HOMO.  Assuming an amine nitrogen lone pair orbital is the main 
component of the HOMO, then it might be expected that the energy of this 
orbital determines the ease of forming and N-H bond with the incoming 
proton.

See "Mitchell, Tute & Webb, Eur. J. Med. Chem., (1990)25, 117-120"
for more details.

			Tim.
-------------------------------------------------------------------------------
|     _____   ____      ||             SmithKline Beecham Pharmaceuticals Ltd |
|    /  ___\\\\ _ \     ||                                      Brockham Park |
|    | |___  \\|_| |    || Tim Mitchell (Comp. Chem.)              Betchworth |
|    \____ \ |  _ <     || Phone:  (0)737 36 4535                      Surrey |
|    ____| | | |_| |    || Fax:    (0)737 36 4539                     RH3 7AJ |
|    \_____/ |____/     || E-Mail: mitchell_t%frgen.dnet@sb.com          U.K. |
-------------------------------------------------------------------------------


From cw@chemhp.chem.warwick.ac.uk  Fri Mar 11 07:40:27 1994
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From: Craig Wilson <cw@chemhp.chem.warwick.ac.uk>
Subject: Re: CCL:rate constants
To: sanja@indigo.irb.hr
Date: Fri, 11 Mar 94 12:10:44 "GMT
Cc: CHEMISTRY@ccl.net
In-Reply-To: <9403100857.AA07569@indigo.irb.hr>; from "sanja@indigo.irb.hr" at Mar 10, 94 9:57 am
Mailer: Elm [revision: 70.85]


> Hi,
> I am looking for a program to calculate the rate constants
> from transition state theory using structures, vibrational frequences and
>  total energies for the reactants and transition states calculated
> by ab initio calculations. I am interesting in some public domain or
>  commercial software. 
> Thanx
> 
>    Sanja


Try POLYRATE 5.0.1, which is available from

Prof. Donald G. Truhlar
Dept. of Chemistry
University of Minnesota
207 Pleasant Street S.E.
Minneapolis, Minnesota 
55455 U.S.A

It will calculate the rate constants for a reaction from the geometries and
frequencies of the reactants, transition state & products. I have used Polyrate
with ab initio data from Gaussian 92. It takes some time to convert the data
(Polyrate requires everything in atomic units), but other than that, it's fine.

Good luck,

Craig Wilson.
Dept. of Chemistry
University of Warwick
Coventry
CV4 7AL
U.K.

From cw@chemhp.chem.warwick.ac.uk  Fri Mar 11 07:54:44 1994
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From: Craig Wilson <cw@chemhp.chem.warwick.ac.uk>
Subject: CCL:rate constants
To: CHEMISTRY@ccl.net
Date: Fri, 11 Mar 94 12:18:13 "GMT
Mailer: Elm [revision: 70.85]


> Hi,
> I am looking for a program to calculate the rate constants
> from transition state theory using structures, vibrational frequences and
>  total energies for the reactants and transition states calculated
> by ab initio calculations. I am interesting in some public domain or
>  commercial software. 
> Thanx
> 
>    Sanja


Try POLYRATE 5.0.1, which is available from

Prof. Donald G. Truhlar
Dept. of Chemistry
University of Minnesota
207 Pleasant Street S.E.
Minneapolis, Minnesota 
55455 U.S.A

It will calculate the rate constants for a reaction from the geometries and
frequencies of the reactants, transition state & products. I have used Polyrate
with ab initio data from Gaussian 92. It takes some time to convert the data
(Polyrate requires everything in atomic units), but other than that, it's fine.

Good luck,

Craig Wilson.
Dept. of Chemistry
University of Warwick
Coventry
CV4 7AL
U.K.


From msrge@csv.warwick.ac.uk  Fri Mar 11 08:03:02 1994
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From: Mr C Wilson <msrge@csv.warwick.ac.uk>
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	id AA13866; Fri, 11 Mar 1994 12:08:16 GMT
Subject: CCL: Rate constants
To: sanja@indigo.irb.hr
Date: Fri, 11 Mar 1994 12:08:13 +0000 (GMT)
Cc: CHEMISTRY@ccl.net
X-Mailer: ELM [version 2.4 PL21]
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> Hi,
> I am looking for a program to calculate the rate constants
> from transition state theory using structures, vibrational frequences and
>  total energies for the reactants and transition states calculated
> by ab initio calculations. I am interesting in some public domain or
>  commercial software. 
> Thanx
> 
>    Sanja


Try POLYRATE 5.0.1, which is available from

Prof. Donald G. Truhlar
Dept. of Chemistry
University of Minnesota
207 Pleasant Street S.E.
Minneapolis, Minnesota 
55455 U.S.A

It will calculate the rate constants for a reaction from the geometries and
frequencies of the reactants, transition state & products. I have used Polyrate
with ab initio data from Gaussian 92. It takes some time to convert the data
(Polyrate requires everything in atomic units), but other than that, it's fine.

Good luck,

Craig Wilson.
Dept. of Chemistry
University of Warwick
Coventry
CV4 7AL
U.K.


From CUNDARIT@MSUVX1.MEMST.EDU  Fri Mar 11 08:40:30 1994
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Date: Fri, 11 Mar 1994 07:37:05 -0600 (CST)
From: CUNDARIT@MSUVX1.MEMST.EDU
Subject: Cambridge Crystallographic Database
To: chemistry@ccl.net
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Hi,

	We are trying to hunt down a Ln complex crystal structure which 
was deposited in the Cambridge database around the late 70's and were
wondering if it were possible to obtain this data electronically (e.g.,
as with the ACS's new electronic retrieval of supplementary data) from
the Royal Society.
	Assuming this is possible (electronically, FAX is good too!) what
are the mechanics (i.e., cost, info needed, e-mail address, etc.) of getting
this accomplished.  Thanks.

					Tom Cundari
					Asst. Professor
					Dept. of Chemistry
					Memphis State University
					Memphis, TN 38152
					phone: 901-678-2629
					fax: 901-678-3447


From jwcnmr@watson.ibm.com  Fri Mar 11 08:44:22 1994
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Date: Thu, 10 Mar 94 14:23:48 EST
From: "James W. Cooper"          <jwcnmr@watson.ibm.com>
Reply-To: "James W. Cooper, Ph.D."          <JWCNMR@watson.ibm.com>
To: chemistry@ccl.net
Subject: Call for papers: Multitasking Workstations
X-External-Networks: yes


Multitasking Workstations for Scientists

American Chemical Society Meeting
Computers in Chemistry Division
Washington, DC
August 21-26, 1994

Purpose: To discuss applications and implications of modern multitasking
computers and operating systems in chemistry. This provides a forum for
presenters to discuss not only Unix applications, but OS/2, NT, Solaris,
Chicago, and other newer operating systems and platforms such as Alpha Risc
and the PowerPC.

Papers in any area of chemistry will be considered, but papers describing
the newest hardware and software widgets without actual chemical
applications will be discouraged.

Abstracts may be submitted by E-mail(preferably)
or snail mail on an ACS Abstract form to
James W. Cooper,
jwcnmr@watson.ibm.com,
IBM T J Watson Research Center,
P O Box 218,
Yorktown Heights, NY 10598.
voice:914-945-1356 fax:914-945-2141.

All abstracts must be received by Friday, April 15, 1994.



James W. Cooper
IBM T J Watson Research Center


From rossi@watson.ibm.com  Fri Mar 11 12:40:31 1994
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To: chemistry@ccl.net
Subject: Call For Papers -- ACS Computers in Chemistry Division
Date: Fri, 11 Mar 94 12:13:18 -0500
From: "Angelo R. Rossi" <rossi@watson.ibm.com>



                            ***************
                            CALL FOR PAPERS
                            ***************

                      American Chemical Society
                  Computers in Chemistry Division

             Washington, D.C. Meeting, August 21-26, 1994

Program Chair: Angelo R. Rossi, IBM Research Division, T. J. Watson
Research Center, Yorktown Heights, NY 10598; Voice: 914-945-3834;
Fax: 914-945-2141; e-mail: rossi@watson.ibm.com.

Four(4) copies of 150-word abstract (Original on ACS Abstract Form) are
due by April 19, 1994 to respective session or symposium chairpersons.

PLEASE NOTE
===========
Inquiries about individual topical sessions should be made directly
to the appropriate session chair.
Inquires and abstracts for the General Oral and Poster Sessions
should be addressed to the Program Chair.

                          ===========
                          The Program
                          ===========

Bonding Models in Chemistry -- Two Sessions.
Professor Timothy R. Hughbanks, Department of Chemistry, College Station,
Texas 77843; Voice: 409-845-0215; Fax: 409-847-8860; e-mail: trh@chemvx.tamu.edu;
Dr. Angelo R. Rossi, IBM Research Division, T. J. Watson Research Center,
Yorktown Heights, New York 10598; Voice: 914-945-3834; Fax: 914-945-2141;
e-mail: rossi@watson.ibm.com.

Molecular Dynamics on Parallel Computers -- Two Sessions.
Dr. Bernard R. Brooks, Molecular Graphics and Simulation Laboratory, Division
of Computer Research and Technology, NIH, Bethesda, Maryland 20892;
Voice: 301-496-0148; Fax: 301-496-2172; e-mail: brbrooks@helix.nih.gov.

Simulation of Membranes and Other Liquid Crystalline Systems -- Two Sessions.
Dr. Richard W. Pastor, Biophysics Laboratory, Center
for Biologics Evaluation and Research, Food and Drug Administration,
Bethesda, Maryland 20892; Voice: 301-496-9508; Fax: 301-496-4684;
e-mail: rwpastor@helix.nih.gov.

Current Topics in Computational Polymer Science -- Two Sessions.
Dr. John P. Puglia, Koch Membrane Systems, 850 Main Street, Wilmington,
MA 01887; Voice: 508-657-4250; Fax: 508-657-5208; e-mail: johnp@world.std.com.

Theoretical and Computational Modelling of NLO and Electronic Materials -- Five Sessions
Dr. A. T. Yeates, Wright Laboratory, Materials Directorate,
WL/MLBP Bldg. 654, 2941 P St. Ste. 1, Wright-Patterson AFB, OH 45433-7750;
Voice: 513-255-9138; Fax: 513-255-9157; e-mail: yeatesat@picard.ml.wpafb.af.mil;
Dr. S. Karna, Photonics Research Laboratory, Dept. of Chemistry, SUNY
Buffalo, Buffalo, NY 14214; Voice: 716-829-3010; Fax: 716-829-2447;
e-mail: chekarna@ubvm.cc.buffalo.edu

Computational Advances in Chemical Dynamics -- Two Sessions.
Dr. Evelyn Goldfield, Theoretical Chemistry Group, Chemistry Division,
Argonne National Laboratory, Argonne, IL 60439;
Voice: 708-252-4121; Fax: 708-252-4470; e-mail: evi@tc.cornell.edu.

Experimental Design for Chemical Models -- Two Sessions.
Dr. Karen Rappaport, Hoechst Celanese Research Division, R. L. Mitchell
Technical Center, 86 Morris Ave., Summit, NJ 07901; Voice: 908-522-7868;
Fax: 908-522-3913; e-mail: kdr@rlmtc.enet.hcc.com.

What Chemists Should Know About Computers and How To Get It. -- One Session.
Professor Raymond E. Dessy, Chemistry Department, Virginia Polytechnic
Institute and State University, 107 Davidson Hall, Blacksburg, Virginia 24061;
Voice: 703-231-5842; Fax: 703-231-3255; e-mail: dessyre@vtcc1.cc.vt.edu;

Molecular Similarity and Database for Drug Design -- Two Sessions.
Dr. B. D. Silverman, IBM Research Division, T. J. Watson Research Center,
Yorktown Heights, New York 10598; Voice 914-784-7055; Fax: 914-784-7055;
e-mail: sil@watson.ibm.com.
Dr. Dave Weiniger. Daylight CIS, 419 East Palace Ave., Santa FE, NM 87501;
Voice: 505-989-1000; Fax: 505-989-1200; e-mail: dave@daylight.com.

Artificial Intelligence in Chemistry -- Three Sessions.
Professor Dan P. Dolata, Department of Chemistry, University of Arizona,
Tucson, Arizona 85721; Voice: 602-621-6337; Fax: 602-621-8407; e-mail:
dolata@mercury.aichem.arizona.edu.

Multitasking Workstations for Scientists -- Two Sessions.
Dr. James W. Cooper, IBM Research Division, T. J. Watson Research Center,
Yorktown Heights, New York 10598; Voice: 914-945-1356; Fax: 914-945-2141;
e-mail: jwcnmr@watson.ibm.com.

General Computational Chemistry - Poster and Oral Sessions.
Dr. Angelo Rossi, IBM Research Division, T. J. Watson Research Center,
Yorktown Heights, NY 10598; Voice: 914-945-3834; Fax: 914-945-2141;
e-mail: rossi@watson.ibm.com.

From HOAREN@CSOVAX.PORTSMOUTH.AC.UK  Fri Mar 11 13:40:31 1994
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From: <HOAREN@CSOVAX.PORTSMOUTH.AC.UK>
Message-Id: <199403111801.NAA21049@www.ccl.net>
Via: uk.ac.portsmouth.csovax; Fri, 11 Mar 1994 16:39:21 +0000
Date: Fri, 11 Mar 94 16:38 GMT
To: CHEMISTRY <CHEMISTRY@ccl.net>
Subject: motif and linux


Dear netters,
 Does anyone know if there is a motif windows manager
available for linux on the p.c. 
If there is where is it available from ?

	Thanks,
		Neil

Neil Hoare
University of Portsmouth,
U.K.
hoaren@uk.ac.portsmouth.csovax

From g9226575@mcmail.cis.mcmaster.ca  Fri Mar 11 14:42:32 1994
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Date: Fri, 11 Mar 1994 14:03:26 -0500 (EST)
From: Byron DeLaBarre <g9226575@mcmail.cis.mcmaster.ca>
Subject: Re: CCL:Cambridge Crystallographic Database
To: CUNDARIT@memstvx1.memst.edu
Cc: chemistry@ccl.net
In-Reply-To: <01H9U6BI7LE08WY3BR@MSUVX1.MEMST.EDU>
Message-Id: <Pine.3.89.9403111310.B2319-0100000@mcmail>
Mime-Version: 1.0
Content-Type: TEXT/PLAIN; charset=US-ASCII


In response to Prof. Cundari's question about CCD


I don't know about American sites, but we have access through the NRC at 
telnet address info.cisti.nrc.ca.  From there we have access to the 
Cambridge Database.

You'll have to contact them about getting an account.

The searching is fairly inexpensive (about $3-7) for a rountine search.  
I'm not sure about other hidden costs as I am only a lowly grad student.


Byron DeLaBarre
Laboratory for Inorganic Medicine
McMaster University
Hamilton, Ontario, Canada
905 525 9140 x22013


From cooksj@ttown.apci.com  Fri Mar 11 17:40:33 1994
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Date: Fri, 11 Mar 94 17:05:07 -0500
From: cooksj@ttown.apci.com (Stephen J. Cook)
Message-Id: <9403112205.AA18762@ttown.apci.com>
To: chemistry@ccl.net
Subject: Accessible surface areas (again)
Reply-To: cooksj@ttown.apci.com



Hi Everybody,

  A couple of days ago, I asked about programs to calculate accessible
surface areas. I received many responses (thanks!), most of which told me
to consult QCPE.

  However, owing to my own inexperience, I'm not sure whether Connolly
surfaces or their derivatives are actually what I want.  I want to calculate
the surface area available to a small molecule in a molecular sieve, which
is a microporous inorganic crystal.  Most of these crystals have cage
structures (e.g. sodalite cages) which could theoretically encapsulate a
small molecule.  However, the openings into these cages are not big enough
to admit any of these  molecules.  So...if the surface rendering algorithm
is naive, then the calculate surface area will be much higher than the
actual "accessible" area.

  Can anyone tell me if the surface area programs from QCPE or anyone else
will distinguish between these different kinds of surfaces?

Steve Cook

*********************************************************************
* Steve Cook                                cooksj@ttown.apci.com   *
* Air Products and Chemicals, Inc.          Tel. (610) 481-2135     *
* 7201 Hamilton Blvd.                       FAX  (610) 481-2446     *
* Allentown, PA 18195                                               *
* USA                                                               *
*********************************************************************
*             Emacs - the choice of a GNU generation                *
*********************************************************************

From PODOSNNA@ACFcluster.NYU.EDU  Fri Mar 11 18:40:34 1994
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Date: Fri, 11 Mar 1994 17:41:40 -0500 (EST)
Subject: compiling AMPAC
To: chemistry@ccl.net
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Dear netters,

I have a problem with recompiling AMPAC 2.1 (QCPE 506) on Open VMS. 
The program runs perfectly under VMS, however under Open VMS it does
not run. Diagnostics:

		high level arithmetic error
                subroutine FOCK1 line 131
                           FOCK2 line 132

Any workarounds?

SIncerely,

Andrew Podosenin

From d3f012@pellucidar.pnl.gov  Fri Mar 11 19:40:36 1994
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 @pnlg.pnl.gov:chemistry@ccl.net id AA01622; Fri, 11 Mar 94 15:55:05 -0800
Date: Fri, 11 Mar 94 15:55:05 -0800
Subject: Chemistry Demos
To: chemistry@ccl.net
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Can anyone give me references or other information
on interesting chemistry demonstrations?

For example, I remember seeing some interesting chemical
oscilations, and phosphorescence demonstrations
several years ago...anything along these lines would
be of interest.

Send info directly to me, I will summarize what I find
out.


Thanks in advance.
Mark








**************************************************************************
Mark A. Thompson                    
Sr. Research Scientist              email:  d3f012@pnlg.pnl.gov
Molecular Science Research Center   FAX  :  509-375-6631
Pacific Northwest Laboratory        voice:  509-375-6734
PO Box 999, Mail Stop K1-90
Richland, WA.  99352

Argus available via anonymous ftp from pnlg.pnl.gov (130.20.64.11) (in the
argus directory).  Download the README_ARGUS file first.

Argus integrals source code available via anonymous ftp from pnlg.pnl.gov 
(130.20.64.11) (in the argus directory).  Download the README_INTS 
file first.
**************************************************************************


From MURASHOV@chem1.chem.dal.ca  Fri Mar 11 21:40:36 1994
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From: "MURASHOV VLADIMIR" <MURASHOV@chem1.chem.dal.ca>
To: chemistry@ccl.net
Date:          Fri, 11 Mar 1994 22:37:54 AST
Subject:       FUNGUS
Priority: normal
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Message-Id: <271E53940DD@chem1.chem.dal.ca>


Dear netters,
I am in big need for a computer simulation codes for
MD simulation in solid state. Could somebody send me
any information on program "FUNGUS"?  I would really 
appreciate it. Thank you very much.
Vladimir.
murashov@ac.dal.ca
Dalhousie University, Halifax, Canada

