CCL:G: ERROR in running gaussian
- From: "Wayne Steinmetz" <WES04747 a
pomona.edu>
- Subject: CCL:G: ERROR in running gaussian
- Date: Thu, 8 Feb 2007 21:00:01 -0800
Sent to CCL by: "Wayne Steinmetz" [WES04747+*+pomona.edu]
Although bonds are a human creation and are not required in a strictly
ab initio quantum calculation, it helps to be heading in the right
direction. Many programs including Gaussian require the Hessian which
is often generated from molecular mechanics.
I examined your pdb structure. It is very strange. The connectivity in
the 5 aromatic rings is wrong. Two of the rings are not connected to
the central antimony. It appears that you have a pentacoordinatd
antimony(V) species. What is the source of the structure? Is it an
X-ray structure?
If so, the CHCl3 is a solvent of crystallization. Do you need it in the
calculation? I am puzzled by the two OH's. Are they actually waters
and two of the H's don't show up in the crystal structure because of
crystal disorder. Many of the pdb files in the crystallographic
databases are flawed. Once one knows the stoichiometry of the substance,
once can patch up the structure and then move ahead. I would first
start with a calculation at a lower level of theory, e.g. a
semi-empirical calculation with a PM3 Hamiltonian.
Wayne E. Steinmetz
Carnegie Professor of Chemistry
Woodbadge Course Director
Chemistry Department
Pomona College
645 North College Avenue
Claremont, California 91711-6338
USA
phone: 1-909-621-8447
FAX: 1-909-607-7726
Email: wsteinmetz .. pomona.edu
WWW: pages.pomona.edu/~wsteinmetz
-----Original Message-----
> From: owner-chemistry .. ccl.net [mailto:owner-chemistry ..
ccl.net]
Sent: Thursday, February 08, 2007 3:34 PM
To: Wayne Steinmetz
Subject: CCL:G: ERROR in running gaussian
Sent to CCL by: "neeraj misra" [misraneeraj(0)gmail.com]
I AM REPEATEDLY GETTING AN ERROR FOR THE FOLLOWING STRUCTURE WHOSE
INPUT
FILE I AM SENDING AS AN ATTACHMENT.THE GAUSSIAN PROCESSING SIMPLY CANNOT
PROCEDD AFTER A FEW SECONDS.PLEASE HELP ME IN LOCATING THE ERROR.
The Gaussian input file can be looked at:
http://www.ccl.net/temp/TAN2OPTAMP1-inp.txt
while the PDB file at:
http://www.ccl.net/temp/TAN2-PDB.txt
--
neeraj misra
ab initio research lab
department of physics
lucknow university 226006
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