From lai@csb0.IPC.PKU.EDU.CN  Thu Nov 20 01:34:14 1997
Received: from csb0.IPC.PKU.EDU.CN  for lai@csb0.IPC.PKU.EDU.CN
	by www.ccl.net (8.8.3/950822.1) id BAA13897; Thu, 20 Nov 1997 01:15:45 -0500 (EST)
Received: by csb0.IPC.PKU.EDU.CN (920330.SGI/940406.SGI.AUTO)
	for CHEMISTRY@www.ccl.net id AA05934; Thu, 20 Nov 97 14:15:46 -0800
Date: Thu, 20 Nov 1997 14:15:44 -0800 (PST)
From: "Prof. Luhua LAI" <lai@csb0.IPC.PKU.EDU.CN>
To: CHEMISTRY@www.ccl.net
Subject: Summary for Examples for Main Chain Flexible Docking
Message-Id: <Pine.SGI.3.91.971120141233.5880A-100000@csb0.IPC.PKU.EDU.CN>
Mime-Version: 1.0
Content-Type: TEXT/PLAIN; charset=US-ASCII


Dear CCLers:

Several days ago, I posted the following question:  

We are studying main chain flexibility in protein-protein or protein-ligand
docking. We would like to find some examples where protein main chain
conformation changes significantly when binds with other molecule. Could
someone give me a few examples? 

Thanks for all who responded to the question. The following is a summary for
all the answers. 
 
-----------------------------------------------------------------------------------
 German Sastre                       URL: http://www.ri.ac.uk/DFRL/G.Sastre
----------------------------------------------------------------------------------
  it could be of interest bearing in mind what happens in some organic bases
  called 'proton sponges':

  some of them have this 'basic group':      

    			R#	 R*
			 \      /
			R-N    N-R
			  |    |       well, sorry about the picture but,
			  C----C       believe it or not, the 'square' is
			  |    |       a naftalene molecule
			  |    |
			  ------

  Now the important thing: in the basic form (as depicted) the repulsion between
  the lone pairs makes the dihedral R#-N-N-R* to have a certain value (the
  dihedral changes through nearly free rotation around the N-C bonds). In the 
  acid form (after getting a H+) that repulsion becomes attraction (now there
  is only one lone pair and the proton), and the dihedral changes accordingly.

  May be you can find a similar effect in your protein-ligand interactions.
  In your case protein makes the role of sponge and ligand plays the role
  of the proton.

  good luck!
  German
                                              \|/
                                             (o o)
------------------------------------------oOO-(_)-OOo-----------------------
 German Sastre                       URL: http://www.ri.ac.uk/DFRL/G.Sastre
 Instituto de Tecnologia Quimica                 e-mail: gsastre@itq.upv.es
 Universidad Politecnica de Valencia               Phone: +34 (9)6-387-7803
 Camino de Vera s/n; 46071 Valencia (Spain)        Fax:   +34 (9)6-387-7809
----------------------------------------------------------------------------
                                            oo0 0oo
---------------------------------------------------------------------------------------------------------
>From Lutz.Ehrlich@EMBL-Heidelberg.de  Wed Nov 12 16:11:19 1997
-------------------------------------------------------------------------------------------
The best example for a main-chain rearrangement upon binding IMHO is the
case of Fab50.1, a HIV-1 neutralizing antibody (cf.R.L. Stanfield and I. A.
Wilson, Trends in Biotechnology, July 1994 (vol 12), 275-9)). Here a
main-chain RMSD of 5.3 Angstrom, corresponding to a scissor-like movement
of V_l with respect to V_h is observed.

In the case of protein-small molecule binding, I somehow have the
thrombin-hirudin case in my mind (you might have to check this,
though...). 

Looking forward to hearing from you. Best regards,

	Lutz Ehrlich

---------------------
Lutz Ehrlich

Structural Biology
EMBL
Meyerhofstr. 1
D-69012 Heidelberg
Germany

email: lutz.ehrlich@embl-heidelberg.de
web  : http://www.embl-heidelberg.de/~ehrlich
phone: +49-6221-387-140
fax  : +49-6221-387-517
--------------------------------------------------------------------------------------------------
>From STEWARTK@RAND.PPRD.Abbott.Com  Wed Nov 12 21:09:43 1997
----------------------------------------------------------------------------------------------
Dr. Lai:  The "flap" region of HIV protease undergoes significant
rigidification upon binding of a substrate or ligand.  In this
99-mer protein, I refer to region 45-55, also called the "flap"
region.  There is a crystal structure of an unliganded form, where
the flap is held in place by a crystal contact.  But it is obvious
that the flap has multiple conformations in solution.  In the
liganded form, there are probably 30 crystal structures in the
PDB which show the flap in nearly identical "locked-down" 
conformation.

Kent Stewart
Department of Structural Biology
Abbott Laboratories
Chicago, IL
United States of America
--------------------------------------------------------------------------------------------------
>From doyle@chop.swmed.edu  Wed Nov 12 23:05:33 1997
-------------------------------------------------------------------------------------------------
The nuclear hormone receptor ligand binding domain is a good example.

See Wurtz et al., Nature Structural Biology vol. 3, 1996, pp 87-94
and Renaud et al., Nature vol. 378, 1994, pp. 681-689.

Good luck,

Donald Doyle
----------------------------------------------------------------------
 Donald F. Doyle, Ph.D.				doyle@chop.swmed.edu
 Howard Hughes Medical Institute		Phone: (214) 648-6787
 UT Southwestern Medical Center			Fax:   (214) 648-5095
 5323 Harry Hines Blvd. Y4.320
 Dallas, TX 75235-9050
----------------------------------------------------------------------
-------------------------------------------------------------------------------------------------
>From wurtz@porto.u-strasbg.fr  Thu Nov 13 01:24:53 1997
------------------------------------------------------------------------------------------------
The ligand binding domain of Nuclear Receptors (NRs) is an interesting case to
study. The crystal structure of unliganded and liganded ligand binding domains
are available (These is the so called steroid/thyroid hormone superfamily).
Ligand binding induces a important transconformation the active complex is then
able to modulate the transcription of target genes. Relevant references are the
following :
- Bourguet, W.; Ruff, M.; Chambon, P.; Gronemeyer, H.; Moras, D. Crystal
structure of the ligand-binding domain of the human nuclear receptor RXR-alpha.
Nature 1995, 375, 377-382.

- Renaud, J. P.; Rochel, N.; Ruff, M.; Vivat, V.; Chambon, P.; Gronemeyer, H.;
Moras, D. Crystal structure of the RAR-gamma ligand-binding domain bound to
all-trans retinoic acid. Nature 1995, 378, 681-689.

- Wagner, R. L.; Apriletti, J. W.; McGrath, M. E.; West, B. L.; Baxter, J. D.;
Fletterick, R. J. A structural role for hormone in the thyroid hormone
receptor. Nature 1995, 378, 690-697.

- Wurtz, J. M.; Bourguet, W.; Renaud, J. P.; Vivat, V.; Chambon, P.; Moras, D.;
Gronemeyer, H. A canonical structure for the ligand-binding domain of nuclear
receptors [published erratum appears in Nat Struct Biol 1996 Feb; 3(2):206].
Nat. Struct. Biol. 1996, 3, 87-94.

Friendly,

-- 

				WURTZ Jean-Marie


________________________________________________________________________
IGBMC               			E-mail : wurtz@igbmc.u-strasbg.fr 
Laboratoire de Biologie Structurale	Phone :  (33) 3 88 65 35 29
Parc d'Innovation			Fax :	 (33) 3 88 65 32 01
1, rue Laurent Fries, BP 163
67404 ILLKIRCH, CU STRASBOURG
France    
________________________________________________________________________
--------------------------------------------------------------------------------------------------
>From info@microsimulations.com  Thu Nov 13 09:32:53 1997
-------------------------------------------------------------------------------------------------
Luhua,

HIV protease is a good example. The binding site are made of a pair
of catalytic triad of Gly, Asp, and Thr. and two beta sheet loops.
When it is free of ligand binding, the two loops are open. They are
moved about 4 Angstroms Upon binding to a inhibitor, to cover up
the binding cavity. You can find the crystal structures of both
in free and bounded form. I do not quite remember the file names.
let me know if you have difficulty finding it at pdb site.

Another one would be antibody binding to antigen. I know much less
in this case. Just a suggestion.

Best regards!
-- 
Willie Cui			voice: 201-512-0486
MicroSimulations		fax:   201-512-0489
478 Green Mountain Road		email: info@microsimulations.com
Mahwah, NJ 07430		URL:   http://www.microsimulations.com
------------------------------------------------------------------------------------------------
>From molmodel@banyu.co.jp  Fri Nov 14 13:02:40 1997
-----------------------------------------------------------------------------------------------
According to X-ray analysis, the structure of CDK2 shows much
movement of main chain when cycinA binds to it.
See 1HCK and 1FIN in PDB.

$B!v!v!v!v!v!v!v!v!v!v!v!v!v!v!v!v!v!v!v!v(J
Toshiharu Iwama
Molecular Modeling Group
Banyu Pharmaceutical Co.,LTD.
Okubo 3, Tsukuba 300-26, JAPAN
E-mail     molmodel@banyu.co.jp

Tel  +81-298-77-2000
Fax  +81-298-77-2029
$B!v!v!v!v!v!v!v!v!v!v!v!v!v!v!v!v!v!v!v!v(J
------------------------------------------------------------------------------------------------




------------------------------------------  
   Luhua Lai
   Institute of Physical Chemistry
   & Department of Chemistry          
   Peking University
   Beijing 100871
   CHINA
   Phone: 86-10-62751490
   Fax:   86-10-62751725
   E-mail: lai@ipc.pku.edu.cn
-----------------------------------------



From val@nmr1.ioc.ac.ru  Thu Nov 20 02:34:16 1997
Received: from nmr1.ioc.ac.ru  for val@nmr1.ioc.ac.ru
	by www.ccl.net (8.8.3/950822.1) id CAA14000; Thu, 20 Nov 1997 02:12:42 -0500 (EST)
Received: from nmr-v.ioc.ac.ru (nmr-v.ioc.ac.ru [193.233.3.213]) by nmr1.ioc.ac.ru (8.6.12/8.6.9) with SMTP id LAA25623 for <CHEMISTRY@www.ccl.net>; Thu, 20 Nov 1997 11:13:02 +0400
Message-ID: <34747EC5.7CD8@nmr1.ioc.ac.ru>
Date: Thu, 20 Nov 1997 10:17:41 -0800
From: "Ananikov V.P." <val@nmr1.ioc.ac.ru>
Reply-To: val@nmr1.ioc.ac.ru
Organization: IOCh
X-Mailer: Mozilla 3.0Gold (Win16; I)
MIME-Version: 1.0
To: CHEMISTRY@www.ccl.net
Subject: ECP & bond orders
Content-Type: text/plain; charset=iso-8859-1
Content-Transfer-Encoding: 8bit


Dear CCL’s,

I would be glad to receive your comments concerning this problem:
When I perform ECP calculations on simple transition metal ions, such 
as PtCl5(-), PtCl6(2-), PtI6(2-), etc., Bond Order Analysis sometimes 
gives small bond order values between nonbonded atoms, i.e. Cl-Cl, I-I.
The bond order values are typically in the range of 0.08-0.1
Might it have a reasonable explanation?
I am using Stevens-Basch-Krauss-Cundari ECP’s as implemented in GAMESS
package.

Since this is observed only with ECP bases set, the answer to the next
rather general question is also of interest:
Does the 'Bond Order' conception in the case of core-potential involved
mean exactly the same as for all-electron calculations?

thank you.

I will summarize.

sincerely,
Valentin.

===============================================================

Valentin P. Ananikov

NMR Laboratory
N.D. Zelinsky Institute of Organic Chemistry
Leninsky Prospect 47
Moscow  117913, Russia

                                    e-mail: val@nmr1.ioc.ac.ru
                       http://nmr1.ioc.ac.ru/Staff/AnanikovVP/
                                        Fax     (7095) 1355328 
                        Phone   (7095) 9383536, (7095) 1359094

From h332262@sirius.cab.u-szeged.hu  Thu Nov 20 11:34:20 1997
Received: from sirius.cab.u-szeged.hu  for h332262@sirius.cab.u-szeged.hu
	by www.ccl.net (8.8.3/950822.1) id KAA16019; Thu, 20 Nov 1997 10:52:54 -0500 (EST)
Received: (qmail 7305 invoked by uid 32262); 20 Nov 1997 15:51:44 -0000
Date: Thu, 20 Nov 1997 16:51:43 +0100 (MET)
From: Kiss Gergo <h332262@sirius.cab.u-szeged.hu>
X-Sender: h332262@sirius
To: chemistry@www.ccl.net
Subject: Tinker outputs
Message-ID: <Pine.GSO.3.96.971120164244.6601A-100000@sirius>
MIME-Version: 1.0
Content-Type: TEXT/PLAIN; charset=US-ASCII


Hi everybody,

I use the Tinker package for some calculations on peptides. The problem
is, that the output is in Tinker's xyz format. Rasmol, Molmol and Molden 
can't read this. If I use the included xyzpdb.x program for converting to
pdb, Rasmol and Molden reads the file, but none of them can perform
backbone calculations.
Do you know about a graphical software, which can read Tinker's xyz
format, or about a converter, which can turn this file into usable form.
Please help me, I will summarize the answers.

Bye,

Kiss, Gergo
h332262@sirius.cab.u-szeged.hu


From Jeffrey.Gosper@brunel.ac.uk  Thu Nov 20 12:01:47 1997
Received: from eros.brunel.ac.uk  for Jeffrey.Gosper@brunel.ac.uk
	by www.ccl.net (8.8.3/950822.1) id KAA16046; Thu, 20 Nov 1997 10:58:24 -0500 (EST)
Received: from castjjg.brunel.ac.uk (actually chem-pc-03.brunel.ac.uk) 
          by eros.brunel.ac.uk with SMTP-BRUNEL (PP);
          Thu, 20 Nov 1997 15:58:01 +0000
Date: Thu, 20 Nov 1997 15:59:06 PST
From: Jeffrey Gosper <Jeffrey.Gosper@brunel.ac.uk>
Subject: Re: CCL:visualizing normal modes?
To: Dan Strahs <strahs@winestock.biomath.nyu.edu>
cc: CHEMISTRY@www.ccl.net
Message-ID: <ECS9711201506A@brunel.ac.uk>
Priority: Normal
MIME-Version: 1.0
Content-Type: TEXT/PLAIN; CHARSET=US-ASCII




> I'm trying to visualize some the normal mode eigenvectors for systems I've
> been working with. 
>
> Is there some package (preferably free) which will:
> 
> 	1) Display atoms and eigenvectors in a 3-D, rotatable reference
> frame;
> 	2) Allow me to import the entire calculated set of normal modes
> and visualize them individually without progressive reloads;
> 
> 	3) Generate some form of output (i.e. Postscript) 
> 
> Thanks for any help that can be offered in this regard.

Yes, yes and yes (even output as an Mpeg if you want).
 
 Re_View2 is what you need it runs under Windows3.1,95,NT
please see  http://www.brunel.ac.uk/depts/chem/ch241s/re_view/re_view2.htm
/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\
 Dr. Jeff Gosper, Dept. of Chemistry, BRUNEL University
 Uxbridge Middx UB8 3PH, UK
 voice:  01895 274000 x2187, facsim: 01895 256844
 internet/email/work:   Jeffrey.Gosper@brunel.ac.uk
 internet/WWW: http://www.brunel.ac.uk/~castjjg
 Re_View's home page (molecular animations or Chem-4D):
        http://www.brunel.ac.uk/depts/chem/ch241s/re_view/re_view.htm
\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/




From Jeffrey.Gosper@brunel.ac.uk  Thu Nov 20 12:05:22 1997
Received: from eros.brunel.ac.uk  for Jeffrey.Gosper@brunel.ac.uk
	by www.ccl.net (8.8.3/950822.1) id LAA16052; Thu, 20 Nov 1997 11:00:36 -0500 (EST)
Received: from castjjg.brunel.ac.uk (actually chem-pc-03.brunel.ac.uk) 
          by eros.brunel.ac.uk with SMTP-BRUNEL (PP);
          Thu, 20 Nov 1997 16:00:14 +0000
Date: Thu, 20 Nov 1997 16:01:19 PST
From: Jeffrey Gosper <Jeffrey.Gosper@brunel.ac.uk>
Subject: Re: CCL:Imaginary Freq.
To: "Douglas E. Stack" <destack@unomaha.edu>
cc: "CHEMISTRY@www.ccl.net" <CHEMISTRY@www.ccl.net>
Message-ID: <ECS9711201619A@brunel.ac.uk>
Priority: Normal
MIME-Version: 1.0
Content-Type: TEXT/PLAIN; CHARSET=US-ASCII





On Wed, 19 Nov 1997 08:52:46 -0600 Douglas E. Stack wrote:

> From: Douglas E. Stack <destack@unomaha.edu>
> Date: Wed, 19 Nov 1997 08:52:46 -0600
> Subject: CCL:Imaginary Freq.
> To: "CHEMISTRY@www.ccl.net" <CHEMISTRY@www.ccl.net>
> 
> I've had a calculation converge to a transition state structure, but the =
> value of my one imaginary frequency seems to low ca. 7 cm-1.
> Animation of the mode seems to connect the nucleophile to the Micheal =
> acceptor, but I was under the impression that the absolute value of the =
> imaginary freq. should b between 600 to 200 cm-1.  I have a ring system =
> composed of two fused six membered rings (the Micheal acceptor) would =
> this make for a low value?
> 
> 
The question really is whether this mode connects the reactants to the products. 
Have you run an IRC?

/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\
 Dr. Jeff Gosper, Dept. of Chemistry, BRUNEL University
 Uxbridge Middx UB8 3PH, UK
 voice:  01895 274000 x2187, facsim: 01895 256844
 internet/email/work:   Jeffrey.Gosper@brunel.ac.uk
 internet/WWW: http://www.brunel.ac.uk/~castjjg
 Re_View's home page (molecular animations or Chem-4D):
        http://www.brunel.ac.uk/depts/chem/ch241s/re_view/re_view.htm
\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/




From aholder@cctr.umkc.edu  Thu Nov 20 15:34:24 1997
Received: from ns1.umkc.edu  for aholder@cctr.umkc.edu
	by www.ccl.net (8.8.3/950822.1) id PAA17058; Thu, 20 Nov 1997 15:05:28 -0500 (EST)
Received: from 134.193.11.2 (holder.chem.umkc.edu [134.193.11.2])
	by ns1.umkc.edu (8.8.7/8.8.7) with SMTP id OAA20884;
	Thu, 20 Nov 1997 14:05:27 -0600 (CST)
X-Mailer: InterCon tcpCONNECT4 4.0.3 (Macintosh)
MIME-Version: 1.0
Message-Id: <9711201406.AA44424@134.193.11.2>
Date: Thu, 20 Nov 1997 14:06:44 -0600
From: "Andy Holder" <aholder@cctr.umkc.edu>
To: chemistry@www.ccl.net
Subject: MJS Dewar died October 10
Content-Type: Multipart/Mixed;boundary=part_B099F4740018449300000003



--part_B099F4740018449300000003
Content-Type: Text/Plain; charset=US-ASCII
Content-Disposition: Inline

Dear Netters and Friends,

  On October 10 of this year MJS Dewar died of congestive heart failure in a 
hospital in Gainesville, FL.  After speaking with his son Steuart, it seems 
that his death was not difficult.

  Since most (if not all) of us use his methods and ideas in our work, I 
thought it beneficial to take a moment and review just a few of Michael 
Dewar's contributions to computational chemistry.  There is a short (and 
woefully incomplete) list below.  Even more than his direct contributions to 
the literature (over 600 papers), Professor Dewar sparked people to think 
differently and in unconventional ways.  As many of us know, he was involved 
in many hot controversies in the literature, all of which had the result of 
advancing science.  Michael Dewar would not let you just plod along in the 
same old rut.  His sparkling prose and inimitable speaking style challenged 
audiences and stimulated discussions for decades.  I think it fitting that 
Michael died in early October, when the Nobel Prize recipients are announced.  
His contributions are certainly worthy of the prize, and he was a perrenial 
candidate for it.

1.  Perturbation molecular orbital (PMO) theory
2.  MINDO3 semiempirical method
3.  MNDO semiempirical method
4.  AM1 semiempirical method
5.  SAM1 semiempirical method
6.  AMPAC and MOPAC programs
7.  Elucidation of basic reaction mechanisms throughout organic chemistry  
    through the application of theoretical methods
8.  Basic contributions in the theory and implementation of semiempirical
    methodology

  A little recent history is probably in order.  Professor Dewar left the 
University of Texas about 1990 and accepted a research professorship at the 
University of Florida.  He worked there on development of the SAM1 method 
until 1992, when he retired.  Michael completely left chemistry when he 
retired, and enjoyed reading (virtually anything), music, old movies, and 
Chinese cooking to mention just a few of his many interests.  Mary Williamson 
Dewar, his and wife and best friend of over 50 years, passed away in 1994.  
There was no memorial service for Michael, and his ashes will be spread with 
those of Mary in the Lake District of northern England, where they honeymooned 
many years ago.   He is survived by his two sons C.E. Steuart Dewar of 
Morganton, GA and Robert B.K. Dewar of New York City.

  He challenged those of us who had the great fortune to work with him in ways 
we never imagined.  He was a loyal and caring mentor and was always gracious 
and kind, even in those painful moments when we insisted on learning the "hard 
way".

Not just those of us who knew him, but SCIENCE will miss him.  A great man has 
left us.

Regards, Andy Holder

PS.  There are preliminary efforts underway to develop an endowment in 
     Professor Dewar's name at the University of Texas at Austin.  If you 
     are interested in being added to the mailing list for this, please let 
     me know.

-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-
 
UUUU  UUU MMM   MMKK KKKK   CCCC   |           ANDREW J. HOLDER
 UU    U   MM   MMK   K    CC  CC  | Assoc. Prof. of Comp./Org. Chemistry
 UU    U   MMM M MK KK    CCC      |          Dept. of Chemistry
 UU    U   M MM  MK   KK   CC  CC  |  University of Missouri-Kansas City
  UUUUU   MMM M MMKK   KK   CCCC   |         Kansas City, MO  64110
                        KK         |          aholder@cctr.umkc.edu
                          K        |  (816) 235-2293, FAX (816) 235-5502
 
-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-
 

--part_B099F4740018449300000003--


From korkin@act.sps.mot.com  Thu Nov 20 17:34:24 1997
Received: from spsem02.sps.mot.com  for korkin@act.sps.mot.com
	by www.ccl.net (8.8.3/950822.1) id QAA17650; Thu, 20 Nov 1997 16:50:14 -0500 (EST)
Received: from mogate.sps.mot.com by spsem02.sps.mot.com (4.1/SMI-4.1/Email 2.1 10/25/93)
	id AA17886 for chemistry@www.ccl.net; Thu, 20 Nov 97 14:30:55 MST
Received: from emailsps.sps.mot.com by mogate.sps.mot.com (4.1/SMI-4.1/Email-2.0)
	id AA00848 for chemistry@www.ccl.net; Thu, 20 Nov 97 14:30:33 MST
Received: from merchant.sps.mot.com (merchant) by act with ESMTP
	(1.37.109.16/16.2) id AA161761432; Thu, 20 Nov 1997 14:30:32 -0700
From: Anatoli Korkin <korkin@act.sps.mot.com>
Received: (from korkin@localhost) by merchant.sps.mot.com (8.7.1/8.7.1) id OAA18203 for chemistry@www.ccl.net; Thu, 20 Nov 1997 14:30:31 -0700 (MST)
Date: Thu, 20 Nov 1997 14:30:31 -0700 (MST)
Message-Id: <199711202130.OAA18203@merchant.sps.mot.com>
To: chemistry@www.ccl.net
Subject: reaction network design
X-Mailer: Siren Mail (Motif 2.02 95/05/15)
Mime-Version: 1.0
Content-Id: <304_18069_880061431_3@merchant>
Content-Type: text/plain; charset="us-ascii"


Dear CCLers,

Can someone give me reference on last developments (e.g 1995 or later) on
reaction network design/generation. Some application results, particularly
in gas phase and gas-surface inorganic molecules reactions will be of interest
too.

Thank you,

Anatoli

******************************************************************
Anatoli Korkin Ph.D             korkin@act.sps.mot.com
Computational Chemist		Tel:    (602) 655-3171
				Fax:    (602) 655-2285

Predictive Engineering Lab	Semiconductor Products Sector
Arizona Technology		Motorola Inc., MD M350
Laboratories			2200 West Broadway Road
				Mesa AZ 85202
*******************************************************************

From Darren.Simpson@unisa.edu.au  Thu Nov 20 23:34:25 1997
Received: from Roll.Levels.UniSA.Edu.Au  for Darren.Simpson@unisa.edu.au
	by www.ccl.net (8.8.3/950822.1) id WAA19023; Thu, 20 Nov 1997 22:59:41 -0500 (EST)
Received: from EXSTAFF3.Levels.UniSA.Edu.Au
 ("port 1547"@EXSTAFF3.Levels.UniSA.Edu.Au)
 by Levels.UniSA.Edu.Au (PMDF V5.0-7 #20435)
 id <01IQ9WIVZ10A984I94@Levels.UniSA.Edu.Au> for chemistry@www.ccl.net; Fri,
 21 Nov 1997 14:27:58 +0930
Received: by EXSTAFF3.Levels.UniSA.Edu.Au with Internet Mail Service
 (5.0.1458.49) id <XJQ0ZJ76>; Fri, 21 Nov 1997 14:28:00 +1030
Date: Fri, 21 Nov 1997 14:27:59 +1030
From: Darren Simpson <Darren.Simpson@unisa.edu.au>
Subject: Electronic configuration of Co
To: "'chemistry@www.ccl.net'" <chemistry@www.ccl.net>
Message-id: 
 <5DA42F8A3C18D111979400AA00DD609D0F8B9B@EXSTAFF3.Levels.UniSA.Edu.Au>
MIME-version: 1.0
X-Mailer: Internet Mail Service (5.0.1458.49)
Content-type: text/plain
Content-transfer-encoding: 7BIT
X-Priority: 3


Hello computational chemists,

I am interested in modeling reactions at the surfaces of NiO and CoO
clusters.  I am also trying to gather information on the electronic
structure of Co in CoO.  The d electrons of these oxides are localized
on the metal atoms as found in transition-metal complexes.  Crystal
field theory used to describe the electronic structure of complexes can
also be applied to these solids.

The structure of these oxides is the rock-salt or face-centred cubic
structure and each metal atom in the bulk is surrounded by 6 oxygen
atoms in an octahedral environment.  For NiO (d8), there is only one
configuration ie t2g [dxy(2) dxz(2) dyz(2)] and eg [dz2(1) dx2-y2(1)]
thus 2 unpaired electrons per Ni atom.  At the 100 surface, t2g/eg
energy levels are distorted due to the reduction in coordination from 6
to 5.

For CoO, the electronic structure is more complex because Co (d7) can
adopt a high-spin (3 unpaired d electrons) or low-spin (1 unpaired d
electron) state.  However I am unsure of the electronic structure in the
bulk and at the surface/boundary of the CoO cluster.  Does, Co adopt a
low-spin state at the surface and high-spin in the bulk?  Any advice,
information, references etc on this topic is welcome .

A summary of responses will posted to the list.

Thanks in advance,

Darren Simpson


Ian Wark Research Institute
University of South Australia
The Levels, SA 5095
Australia

Email: darren.simpson@unisa.edu.au



