From owner-chemistry@ccl.net Mon Jul 22 03:32:01 2013 From: "John Simmie john.simmie]_[nuigalway.ie" To: CCL Subject: CCL: Pressure limits( and kinetics) Message-Id: <-48983-130722032718-3947-W95uO13H1U65NQryu5/i8Q[a]server.ccl.net> X-Original-From: "John Simmie" Date: Mon, 22 Jul 2013 03:27:17 -0400 Sent to CCL by: "John Simmie" [john.simmie|nuigalway.ie] The high- and low-pressure limits relate to the different behaviour of a unimolecular reaction; specifically to the rate of reaction at these extremes at a constant temperature. At infinitely high-pressure the reaction is first order in reactant and at low pressures the reaction becomes second order first order in reactant and first order in the bath gas. It becomes more difficult to observe the hi-pressure limit experimentally at high temperatures and with small molecules. That is, the pressures required to get there become greater and greater. Most university level physical chemistry texts describe this situation (Lindemann mechanism) and those are better places to start your enquiries. J. M. Simmie//NUIG//Ireland >Sent to CCL by: "bonoit bonoit" [bonoit_10[-]yahoo.fr] Dear CCLers, >I would like to enquire about the meaning of high-pressure limit and low-pressure limit and what are their influence on the rate >of a given reaction. I mean why some products form in the high-pressure limit and other low-pressure limit? >What is the relation of these two pressure limits with temperature? >Regards >Bonoit From owner-chemistry@ccl.net Mon Jul 22 10:25:00 2013 From: "Simmie, John john.simmie[a]nuigalway.ie" To: CCL Subject: CCL: pressure (and kinetics) Message-Id: <-48984-130722024121-1015-fh1ZCi+j4gZsvO4qTr/p7w**server.ccl.net> X-Original-From: "Simmie, John" Content-class: urn:content-classes:message Content-Type: multipart/alternative; boundary="----_=_NextPart_001_01CE86A6.74F643D1" Date: Mon, 22 Jul 2013 07:41:12 +0100 MIME-Version: 1.0 Sent to CCL by: "Simmie, John" [john.simmie#%#nuigalway.ie] This is a multi-part message in MIME format. ------_=_NextPart_001_01CE86A6.74F643D1 Content-Type: text/plain; charset="us-ascii" Content-Transfer-Encoding: quoted-printable The high- and low-pressure limits relate to the different behaviour of a unimolecular reaction; specifically to the rate of reaction at these extremes at a constant temperature. At infinitely high-pressure the reaction is first order in reactant and at low pressures the reaction becomes second order ... first order in reactant and first order in the bath gas. It becomes more difficult to observe the hi-pressure limit experimentally at high temperatures and with small molecules. Most university level physical chemistry texts describe this situation and those are better places to start your enquiries. =20 J. M. Simmie//NUIG//Ireland =20 >Sent to CCL by: "bonoit bonoit" [bonoit_10[-]yahoo.fr] Dear CCLers, =20 >I would like to enquire about the meaning of high-pressure limit and low-pressure limit and what are their influence on the rate >of a given reaction. I mean why some products form in the high-pressure limit and other low-pressure limit? >What is the relation of these two pressure limits with temperature? =20 >Regards >Bonoit =20 =20 =20 ------_=_NextPart_001_01CE86A6.74F643D1 Content-Type: text/html; charset="us-ascii" Content-Transfer-Encoding: quoted-printable

The = high- and low-pressure limits relate to the different behaviour of a = unimolecular reaction; specifically to the rate of reaction at these = extremes at a constant temperature.  At infinitely high-pressure = the reaction is first order in reactant and at low pressures the = reaction becomes second order … first order in reactant and first = order in the bath gas.  It becomes more difficult to observe the = hi-pressure limit experimentally at high temperatures and with small = molecules.

Most university level = physical chemistry texts describe this situation and those are better = places to start your enquiries.

 

J. M. = Simmie//NUIG//Ireland

 

>Sent to CCL by: "bonoit  bonoit" = [bonoit_10[-]yahoo.fr] Dear CCLers,

 

>I = would like to enquire about the meaning of high-pressure limit and = low-pressure limit and what are their influence on the rate >of a = given reaction. I mean why some products form in the high-pressure limit = and other low-pressure limit?

>What is the relation of these two pressure = limits with temperature?

 

>Regards

>Bonoit

 

 

 

------_=_NextPart_001_01CE86A6.74F643D1-- From owner-chemistry@ccl.net Mon Jul 22 16:47:00 2013 From: "p.d.jarowski-*-surrey.ac.uk" To: CCL Subject: CCL:G: natural transition orbital analysis Message-Id: <-48985-130722162841-21516-jXWX68X0CPz1rTdhhIOIgg]~[server.ccl.net> X-Original-From: Content-Language: en-US Content-Transfer-Encoding: 8bit Content-Type: text/plain; charset="us-ascii" Date: Mon, 22 Jul 2013 21:24:37 +0100 MIME-Version: 1.0 Sent to CCL by: [p.d.jarowski##surrey.ac.uk] Hi Everyone, I have encountered a similar problem. Mainly, once the orbitals are saved, where are they saved and how does one view them? The chk file has many orbitals contained within. The gaussian manual says that the orbitals are overwritten, which ones? Do we view the HOMO and LUMO and assume these are the NTOs of interest. An alternative is to use the Nancy code, but this requires huge wrf to be written and may require one to recalculate the TD. I have used Nancy before but the steps involved are a bit cumbersome. It would be better to be able to do it directly with Gaussian. Best Regards, Peter ________________________________________ > From: owner-chemistry+p.d.jarowski==surrey.ac.uk(-)ccl.net [owner-chemistry+p.d.jarowski==surrey.ac.uk(-)ccl.net] On Behalf Of meishway linkon meishwaylinkon###yahoo.com [owner-chemistry(-)ccl.net] Sent: Saturday, July 20, 2013 8:18 AM To: Jarowski PD Dr (Physics) Subject: CCL: natural transition orbital analysis Sent to CCL by: "meishway linkon" [meishwaylinkon[-]yahoo.com] hello, before i sent a question about NTO analysis, i got information from some CCl past questions. i found its route section # opt td=(root=1,nstates=6) b3lyp/6-31g(d) density=transition=1 pop(NTO,saveNTO) am wondering why the word opt is used? is it necessary to carry NTO analysis, as structure is already ground state optimized. secondly, what does mean "density=transition=1" why it is written 1 here? thankshttp://www.ccl.net/cgi-bin/ccl/send_ccl_messagehttp://www.ccl.net/chemistry/sub_unsub.shtmlhttp://www.ccl.net/spammers.txt From owner-chemistry@ccl.net Mon Jul 22 20:13:01 2013 From: "gabriela arias gabriela.arias..yorkmail.cuny.edu" To: CCL Subject: CCL:G: What settings should I use in G09W to prevent the breaking of a bond? Message-Id: <-48986-130722200626-15678-1rivS2WCoojV8OKI6LgONA]=[server.ccl.net> X-Original-From: "gabriela arias" Date: Mon, 22 Jul 2013 20:06:25 -0400 Sent to CCL by: "gabriela arias" [gabriela.arias-*-yorkmail.cuny.edu] Hello everyone: I am doing an optimization and frequency calculation in Gaussian09 to obtain the Raman and Infrared spectra of cysteine. In the output, the bond between the thiol group and the adjacent carbon is broken, which is wrong. What can I do to prevent this bond from breaking? These are the settings that I am using: %nprocshared=2 # opt=tight freq=raman b3lyp/6-311+g geom=connectivity Title Card Required -1 1 C -2.18907515 2.08528252 -2.35362466 C -2.51526953 1.22134909 -1.12122202 O -2.82257852 1.77040643 -0.03142030 N -0.74900832 2.37936285 -2.37861038 H -0.23470752 1.52307575 -2.42622442 H -0.53719378 2.94035858 -3.17887183 O -2.46894955 -0.20480359 -1.21525919 C -2.57949898 1.32244966 -3.63317742 H -2.02919712 0.40622247 -3.68412445 H -2.35285743 1.92271509 -4.48945717 H -2.73937700 3.00150971 -2.30267762 C -4.08814042 1.01436550 -3.60700190 H -4.35940892 0.48434527 -4.49604181 H -4.63844227 1.93059270 -3.55605487 S -4.46517029 0.01579310 -2.18253651 H -5.74849515 -0.24627848 -2.16027033 1 2 1.0 4 1.0 8 1.0 11 1.0 2 3 2.0 7 1.0 3 4 5 1.0 6 1.0 5 6 7 8 9 1.0 10 1.0 12 1.0 9 10 11 12 13 1.0 14 1.0 15 1.0 13 Best regards and thanks for your help, Gabriela From owner-chemistry@ccl.net Mon Jul 22 21:01:00 2013 From: "=?ISO-8859-1?Q?Jo=E3o_Brand=E3o?= jbrandao_+_ualg.pt" To: CCL Subject: CCL: Pressure Message-Id: <-48987-130722101753-28468-vVbHBel6tzNtxpHD/CYtqA .. server.ccl.net> X-Original-From: =?ISO-8859-1?Q?Jo=E3o_Brand=E3o?= Content-Type: multipart/alternative; boundary="------------020605060806070500080507" Date: Mon, 22 Jul 2013 15:17:27 +0100 MIME-Version: 1.0 Sent to CCL by: =?ISO-8859-1?Q?Jo=E3o_Brand=E3o?= [jbrandao]^[ualg.pt] This is a multi-part message in MIME format. --------------020605060806070500080507 Content-Type: text/plain; charset=ISO-8859-1; format=flowed Content-Transfer-Encoding: 8bit Hi I suppose, Bonoit is talking about reaction rate, nor chemical equilibrium. Usually, the effect of the pressure is the alteration of energy (mainly stabilization) of a reaction intermediate (complex or product) by non reactive collisions with a third partner. As this third partner is not explicit included in the rate constants, it is accounted as an effect of the total pressure. João Brandão Universidade do Algarve, Portugal Em 22-07-2013 03:03, Van Dam, Hubertus J HubertusJJ.vanDam~!~pnnl.gov escreveu: > Sent to CCL by: "Van Dam, Hubertus J" [HubertusJJ.vanDam(-)pnnl.gov] > Hi Bonoit, > > I assume you are talking about gas-phase reactions. In gas-phase reactions the pressure at which a reaction is performed shifts the equilibrium composition. If the pressure is increased the equilibrium shifts towards the side with fewer molecules and for pressure lowering the opposite happens. Differences in temperature have similar effects, with higher temperatures shifting the equilibrium to the endothermic side and vice versa. This is a straightforward application of Chatelier's principle (in the Netherlands it is referred to as the van 't Hoff principle but I haven't been able to find an obvious reference to his contribution). > > Best wishes, > > Huub van Dam > Pacific Northwest National Laboratory > Tel: 509-372-6441 > > > > > > -----Original Message----- > >> From: owner-chemistry+hubertus.vandam==pnnl.gov^^^ccl.net [mailto:owner-chemistry+hubertus.vandam==pnnl.gov^^^ccl.net] On Behalf Of bonoit bonoit bonoit_10+*+yahoo.fr >> > Sent: Sunday, July 21, 2013 11:11 AM > To: Van Dam, Hubertus J > Subject: CCL: Pressure > > > Sent to CCL by: "bonoit bonoit" [bonoit_10[-]yahoo.fr] Dear CCLers, > > I would like to enquire about the meaning of high-pressure limit and low-pressure limit and what are their influence on the rate of a given reaction. I mean why some products form in the high-pressure limit and other low-pressure limit? > What is the relation of these two pressure limits with temperature? > > Regards > Bonoithttp://www.ccl.net/cgi-bin/ccl/send_ccl_messagehttp://www.ccl.net/chemistry/sub_unsub.shtmlhttp://www.ccl.net/spammers.txt> > > > --------------020605060806070500080507 Content-Type: text/html; charset=ISO-8859-1 Content-Transfer-Encoding: 7bit Hi

I suppose, Bonoit is talking about reaction rate, nor chemical equilibrium.

Usually, the effect of the pressure is the alteration of energy (mainly stabilization) of a reaction intermediate (complex or product) by non reactive collisions with a third partner.
As this third partner is not explicit included in the rate constants, it is accounted as an effect of the total pressure.

João Brandão
Universidade do Algarve, Portugal


Em 22-07-2013 03:03, Van Dam, Hubertus J HubertusJJ.vanDam~!~pnnl.gov escreveu:
Sent to CCL by: "Van Dam, Hubertus J" [HubertusJJ.vanDam(-)pnnl.gov]
Hi Bonoit,

I assume you are talking about gas-phase reactions. In gas-phase reactions the pressure at which a reaction is performed shifts the equilibrium composition. If the pressure is increased the equilibrium shifts towards the side with fewer molecules and for pressure lowering the opposite happens. Differences in temperature have similar effects, with higher temperatures shifting the equilibrium to the endothermic side and vice versa. This is a straightforward application of Chatelier's principle (in the Netherlands it is referred to as the van 't Hoff principle but I haven't been able to find an obvious reference to his contribution).

Best wishes,

Huub van Dam
Pacific Northwest National Laboratory
Tel:  509-372-6441 





-----Original Message-----
  
From: owner-chemistry+hubertus.vandam==pnnl.gov^^^ccl.net [mailto:owner-chemistry+hubertus.vandam==pnnl.gov^^^ccl.net] On Behalf Of bonoit bonoit bonoit_10+*+yahoo.fr
    
Sent: Sunday, July 21, 2013 11:11 AM
To: Van Dam, Hubertus J
Subject: CCL: Pressure


Sent to CCL by: "bonoit  bonoit" [bonoit_10[-]yahoo.fr] Dear CCLers,

I would like to enquire about the meaning of high-pressure limit and low-pressure limit and what are their influence on the rate of a given reaction. I mean why some products form in the high-pressure limit and other low-pressure limit?
What is the relation of these two pressure limits with temperature?

Regards
Bonoithttp://www.ccl.net/cgi-bin/ccl/send_ccl_messagehttp://www.ccl.net/chemistry/sub_unsub.shtmlhttp://www.ccl.net/spammers.txtE-mail to subscribers: CHEMISTRY..ccl.net or use:
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--------------020605060806070500080507-- From owner-chemistry@ccl.net Mon Jul 22 21:36:00 2013 From: "=?ISO-8859-1?Q?Jo=E3o_Brand=E3o?= jbrandao(!)ualg.pt" To: CCL Subject: CCL: Oxygen atom Message-Id: <-48988-130722104409-5907-AwKcxH3OSp4XWX7OOMCMCg++server.ccl.net> X-Original-From: =?ISO-8859-1?Q?Jo=E3o_Brand=E3o?= Content-Type: multipart/alternative; boundary="------------060301040207090503070400" Date: Mon, 22 Jul 2013 15:43:45 +0100 MIME-Version: 1.0 Sent to CCL by: =?ISO-8859-1?Q?Jo=E3o_Brand=E3o?= [jbrandao],[ualg.pt] This is a multi-part message in MIME format. --------------060301040207090503070400 Content-Type: text/plain; charset=ISO-8859-1; format=flowed Content-Transfer-Encoding: 8bit Hi Oxygen atom: O (/1s^2 2s^2 2p^4 /) There are 15 different ways to distribute the 4 electrons over de 3 /2p/ orbitals. This gives rise to 3 atomic states: /^3 P/ , /^1 D/ (45,2 kcal/mol above) and /^1 S/ (95,0 kcal/mol)/./ Considering spin-orbit coupling, we will have: /^3 P_2 /, /^3 P_1 /, /^3 P_0 /, /^1 D_2 / e /^1 S_0 ./ The /^ 3 P_1 e ^3 P_0 /are 0.453 e 0.668 kcal/mol (228K e 326K) above the ground state/, ^3 P_2 /./ / João Brandão Universidade do Algarve, Portugal Em 21-07-2013 19:05, bonoit bonoit bonoit_10++yahoo.fr escreveu: > Sent to CCL by: "bonoit bonoit" [bonoit_10[a]yahoo.fr] > Dear CCLers, > > I would like to enquire about the oxygen atom. What is the difference between the O(3P) and O(1D)? > > > Regards > Bonoit> > > > --------------060301040207090503070400 Content-Type: text/html; charset=ISO-8859-1 Content-Transfer-Encoding: 7bit Hi

Oxygen atom: O  (1s22s22p4)

There are 15 different ways to distribute the 4 electrons over de 3 2p orbitals.

This gives rise to 3 atomic states: 3P , 1D (45,2 kcal/mol above) and  1S (95,0 kcal/mol).

Considering spin-orbit coupling, we will have:  3P2, 3P1, 3P0, 1D2 e 1S0.

The  3P1 e  3P0 are 0.453 e 0.668 kcal/mol (228K e 326K) above the ground state, 3P2.

João Brandão
Universidade do Algarve, Portugal




Em 21-07-2013 19:05, bonoit bonoit bonoit_10++yahoo.fr escreveu:
Sent to CCL by: "bonoit  bonoit" [bonoit_10[a]yahoo.fr]
Dear CCLers,

I would like to enquire about the oxygen atom. What is the difference between  the O(3P) and O(1D)? 


Regards
BonoitE-mail to subscribers: CHEMISTRY!A!ccl.net or use:
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--------------060301040207090503070400-- From owner-chemistry@ccl.net Mon Jul 22 22:11:00 2013 From: "Gabriela Arias gabriela.ariasdelarosa ~~ gmail.com" To: CCL Subject: CCL:G: What settings should I use in G09W to prevent the breaking of a bond? Message-Id: <-48989-130722200229-15322-vueSy5omOMm+kxWkDuz6Wg.:.server.ccl.net> X-Original-From: "Gabriela Arias" Date: Mon, 22 Jul 2013 20:02:28 -0400 Sent to CCL by: "Gabriela Arias" [gabriela.ariasdelarosa[-]gmail.com] Hello everyone: I am doing an optimization and frequency calculation in Gaussian09 to obtain the Raman and Infrared spectra of cysteine. In the output, the bond between the thiol group and the adjacent carbon is broken, which is wrong. What can I do to prevent this bond from breaking? These are the settings that I am using: %nprocshared=2 # opt=tight freq=raman b3lyp/6-311+g geom=connectivity Title Card Required -1 1 C -2.18907515 2.08528252 -2.35362466 C -2.51526953 1.22134909 -1.12122202 O -2.82257852 1.77040643 -0.03142030 N -0.74900832 2.37936285 -2.37861038 H -0.23470752 1.52307575 -2.42622442 H -0.53719378 2.94035858 -3.17887183 O -2.46894955 -0.20480359 -1.21525919 C -2.57949898 1.32244966 -3.63317742 H -2.02919712 0.40622247 -3.68412445 H -2.35285743 1.92271509 -4.48945717 H -2.73937700 3.00150971 -2.30267762 C -4.08814042 1.01436550 -3.60700190 H -4.35940892 0.48434527 -4.49604181 H -4.63844227 1.93059270 -3.55605487 S -4.46517029 0.01579310 -2.18253651 H -5.74849515 -0.24627848 -2.16027033 1 2 1.0 4 1.0 8 1.0 11 1.0 2 3 2.0 7 1.0 3 4 5 1.0 6 1.0 5 6 7 8 9 1.0 10 1.0 12 1.0 9 10 11 12 13 1.0 14 1.0 15 1.0 13 Best regards and thanks for your help, Gabriela