[gmx-users] request
hadi behzadi
behzadihadi at yahoo.com
Mon May 22 21:22:29 CEST 2006
hello
I have a topology file for propanol as is in below , how we can obtain topology file for 100 molecule of propanol
thanks
;
;
; This file was generated by PRODRG version 051202.0518
; PRODRG written/copyrighted by Daan van Aalten
;
; Questions/comments to dava at davapc1.bioch.dundee.ac.uk
;
; When using this software in a publication, cite:
; A. W. Schuettelkopf and D. M. F. van Aalten (2004).
; PRODRG - a tool for high-throughput crystallography
; of protein-ligand complexes.
; Acta Crystallogr. D60, 1355--1363.
;
;
[ moleculetype ]
; Name nrexcl
DRG 3
[ atoms ]
; nr type resnr resid atom cgnr charge mass
1 CH3 1 DRG CAD 1 0.014 15.0350
2 CH2 1 DRG CAA 1 0.037 14.0270
3 CH2 1 DRG CAB 1 0.037 14.0270
4 OA 1 DRG OAC 1 -0.116 15.9994
5 HO 1 DRG HAA 1 0.028 1.0080
[ bonds ]
; ai aj fu c0, c1, ...
1 2 1 0.153 334720.0 0.153 334720.0 ; CAD CAA
2 3 1 0.153 334720.0 0.153 334720.0 ; CAA CAB
3 4 1 0.143 334720.0 0.143 334720.0 ; CAB OAC
4 5 1 0.100 313800.0 0.100 313800.0 ; OAC HAA
[ pairs ]
; ai aj fu c0, c1, ...
1 4 1 ; CAD OAC
2 5 1 ; CAA HAA
[ angles ]
; ai aj ak fu c0, c1, ...
1 2 3 1 111.0 460.2 111.0 460.2 ; CAD CAA CAB
2 3 4 1 109.5 460.2 109.5 460.2 ; CAA CAB OAC
3 4 5 1 109.5 397.5 109.5 397.5 ; CAB OAC HAA
[ dihedrals ]
; ai aj ak al fu c0, c1, m, ...
4 3 2 1 1 0.0 5.9 3 0.0 5.9 3 ; dih OAC CAB CAA CAD
2 3 4 5 1 0.0 1.3 3 0.0 1.3 3 ; dih CAA CAB OAC HAA
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