3 PROCHECK - Stereochemical Quality of Protein Structures
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5 and AQUA for PROCHECK-NMR
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8 CONFIDENTIALITY AGREEMENT
9 -------------------------
13 In regard to the PROCHECK suite of programs, specified in Appendix 1
14 herewith and the AQUA suite of programs specified in Appendix 2 herewith
15 (the Software) supplied to us, the copyright and other intellectual
16 property rights to which belong to the authors, we
18 __________________________________________________________________
20 undertake to the authors that we shall be bound by the following terms and
23 1. We will receive the Software and any related documentation in confidence
24 and will not use the same except for the purpose of the department's own
25 research. The Software will be used only by such of our officers or
26 employees to whom it must reasonably be communicated to enable us to
27 undertake our research and who agree to be bound by the same confidence.
28 The department shall procure and enforce such agreement from its staff for
29 the benefit of the authors.
31 2. The publication of research using the Software must reference
33 "Laskowski R A, MacArthur M W, Moss D S & Thornton J M (1993). PROCHECK:
34 a program to check the stereochemical quality of protein
35 structures. J. Appl. Cryst., 26, 283-291."
39 "Rullmann J A C (1996). AQUA, Computer Program, Department of NMR
40 Spectroscopy, Bijvoet Center for Biomolecular Research, Utrecht
41 University, The Netherlands."
44 3. Research shall take place solely at the department's premises at
46 __________________________________________________________________
48 4. All forms of the Software will be kept in a reasonably secure place to
49 prevent unauthorised access.
51 5. Each copy of the Software or, if not practicable then, any package
52 associated therewith shall be suitably marked (and such marking maintained)
53 with the following copyright notice: " Copyright 1992 M W MacArthur, R A
54 Laskowski, D S Moss, J A C Rullmann & J M Thornton All Rights Reserved".
56 6. The Software may be modified but any changes made shall be made
57 available to the authors.
59 7. The Software shall be used exclusively for academic teaching and
60 research. The Software will not be used for any commercial research or
61 research associated with an industrial company.
63 8. The confidentiality obligation in paragraph one shall not apply:
65 (i) to information and data known to the department at the time of
66 receipt hereunder (as evidenced by its written records);
68 (ii) to information and data which was at the time of receipt in the
69 public domain or thereafter becomes so through no wrongful act of
72 (iii) to information and data which the department receives from a third
73 party not in breach of any obligation of confidentiality owed to
78 Please sign this Undertaking and return a copy of it to indicate that you
79 have read, understood and accepted the above terms.
83 For and on behalf of _____________________________
85 _________________________________________________
87 ..................................................
89 Dated ............................................
94 APPENDIX 1 - DETAILS OF THE PROCHECK SUITE OF PROGRAMS PROVIDED (v.3.4.3)
95 ---------------------------------------------------------------
109 10. mplot.inc } Source program files
127 28. procheck_comp.com }
128 29. procheck_comp.scr }
129 30. procheck_nmr.scr }
131 32. proplot.scr } Script files
132 33. proplot_comp.scr }
133 34. proplot_nmr.scr }
134 35. proplot_comp.com }
140 41. procomp.com } Installation files
143 44. manual.tar.Z } Documentation files
144 45. nmr_manual.tar.Z }
146 47. procheck.prm } Data
147 48. procheck_comp.prm } files
148 49. procheck_nmr.prm }
151 APPENDIX 2 - DETAILS OF THE AQUA SUITE OF PROGRAMS PROVIDED (v.0.40)
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160 AquaCalc.c AquaCalc.h
162 AquaDist.c AquaDist.h
163 AquaFiles.c AquaFiles.h
164 AquaFuncts.c AquaFuncts.h
165 AquaFuncts_biosym.c AquaFuncts_biosym.h
166 AquaFuncts_cv.c AquaFuncts_cv.h
167 AquaFuncts_io.c AquaFuncts_io.h
168 AquaFuncts_pdb.c AquaFuncts_pdb.h
169 AquaFuncts_pdbmr.c AquaFuncts_pdbmr.h
172 AquaPseudo.c AquaPseudo.h
173 AquaStrucset.c AquaStrucset.h
175 AquaWhat.c AquaWhat.h
182 ReadNrv.pm* convDIANAtorsrestr qdbext*
183 aqdrst* convDISGEOdistrestr qguessc*
184 aqpc* convDISGEOtorsrestr qguessr*
185 aqpcsel convMRTABLE qhelp*
186 aquanal.pl* convXPLORdistrestr qmodr*
187 clean0* convXPLORtorsrestr qsplitr*
188 convBIOSYMdistrestr makecmm* qsumm*
189 convBIOSYMtorsrestr qconvert* qsumm_aux1*
190 convDIANAdistrestr qconvr* qsumm_aux2*
194 README models.txt qconvr.txt
195 aqpc.txt mr.txt qdbext.txt
196 aqua_setup.txt names.txt qext.txt
197 biosym.txt overview.txt qhelp.txt
198 chains.txt perl.txt qsumm.txt
199 conversion.txt procheck.txt restraint_format.txt
200 dbas.txt qanal.txt setup.txt
201 intro.txt qclean.txt torsion.txt
202 log.txt qconvert.txt xplor.txt
210 Please complete the above form, sign it, and then send or fax to:-
214 European Bioinformatics Institute,
215 Wellcome Trust Genome Campus,
220 Fax:- +44 (0)1223 494 468
222 If you have any problems either installing the software or running it,
223 please e-mail your problems to:-
227 Questions about AQUA should be directed to Ton Rullmann at