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231 lines
7.5 KiB
231 lines
7.5 KiB
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PROCHECK - Stereochemical Quality of Protein Structures
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-------------------------------------------------------
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and AQUA for PROCHECK-NMR
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-------------------------
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CONFIDENTIALITY AGREEMENT
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-------------------------
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In regard to the PROCHECK suite of programs, specified in Appendix 1
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herewith and the AQUA suite of programs specified in Appendix 2 herewith
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(the Software) supplied to us, the copyright and other intellectual
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property rights to which belong to the authors, we
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__________________________________________________________________
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undertake to the authors that we shall be bound by the following terms and
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conditions:-
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1. We will receive the Software and any related documentation in confidence
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and will not use the same except for the purpose of the department's own
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research. The Software will be used only by such of our officers or
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employees to whom it must reasonably be communicated to enable us to
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undertake our research and who agree to be bound by the same confidence.
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The department shall procure and enforce such agreement from its staff for
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the benefit of the authors.
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2. The publication of research using the Software must reference
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"Laskowski R A, MacArthur M W, Moss D S & Thornton J M (1993). PROCHECK:
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a program to check the stereochemical quality of protein
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structures. J. Appl. Cryst., 26, 283-291."
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and
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"Rullmann J A C (1996). AQUA, Computer Program, Department of NMR
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Spectroscopy, Bijvoet Center for Biomolecular Research, Utrecht
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University, The Netherlands."
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3. Research shall take place solely at the department's premises at
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__________________________________________________________________
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4. All forms of the Software will be kept in a reasonably secure place to
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prevent unauthorised access.
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5. Each copy of the Software or, if not practicable then, any package
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associated therewith shall be suitably marked (and such marking maintained)
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with the following copyright notice: " Copyright 1992 M W MacArthur, R A
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Laskowski, D S Moss, J A C Rullmann & J M Thornton All Rights Reserved".
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6. The Software may be modified but any changes made shall be made
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available to the authors.
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7. The Software shall be used exclusively for academic teaching and
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research. The Software will not be used for any commercial research or
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research associated with an industrial company.
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8. The confidentiality obligation in paragraph one shall not apply:
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(i) to information and data known to the department at the time of
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receipt hereunder (as evidenced by its written records);
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(ii) to information and data which was at the time of receipt in the
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public domain or thereafter becomes so through no wrongful act of
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the department;
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(iii) to information and data which the department receives from a third
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party not in breach of any obligation of confidentiality owed to
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the authors.
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Please sign this Undertaking and return a copy of it to indicate that you
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have read, understood and accepted the above terms.
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For and on behalf of _____________________________
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_________________________________________________
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..................................................
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Dated ............................................
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APPENDIX 1 - DETAILS OF THE PROCHECK SUITE OF PROGRAMS PROVIDED (v.3.4.3)
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---------------------------------------------------------------
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Files to be included
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--------------------
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1. anglen.f }
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2. anglen.inc }
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3. bplot.f }
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4. bplot.inc }
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5. brkcln.par }
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6. clean.f }
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7. gfac2pdb.f }
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8. gfac2pdb.inc }
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9. mplot.f }
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10. mplot.inc } Source program files
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11. nb.c }
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12. pplot.f }
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13. pplot.inc }
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14. ps.f }
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15. rmsdev.f }
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16. rmsdev.inc }
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17. secstr.f }
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18. sstruc.par }
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19. tplot.f }
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20. tplot.inc }
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21. viol2pdb.f }
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22. viol2pdb.inc }
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23. vplot.f }
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24. vplot.inc }
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25. gfac2pdb.scr }
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26. procheck.com }
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27. procheck.scr }
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28. procheck_comp.com }
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29. procheck_comp.scr }
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30. procheck_nmr.scr }
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31. proplot.com }
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32. proplot.scr } Script files
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33. proplot_comp.scr }
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34. proplot_nmr.scr }
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35. proplot_comp.com }
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36. prosub.com }
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37. setup.com }
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38. setup.scr }
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39. viol2pdb.scr }
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40. convax.for }
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41. procomp.com } Installation files
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42. procomp.scr }
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43. maninst.ps }
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44. manual.tar.Z } Documentation files
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45. nmr_manual.tar.Z }
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46. procheck.dat }
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47. procheck.prm } Data
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48. procheck_comp.prm } files
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49. procheck_nmr.prm }
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APPENDIX 2 - DETAILS OF THE AQUA SUITE OF PROGRAMS PROVIDED (v.0.40)
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-----------------------------------------------------------
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Files to be included
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--------------------
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Source files:-
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------------
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AquaCalc.c AquaCalc.h
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AquaData.h
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AquaDist.c AquaDist.h
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AquaFiles.c AquaFiles.h
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AquaFuncts.c AquaFuncts.h
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AquaFuncts_biosym.c AquaFuncts_biosym.h
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AquaFuncts_cv.c AquaFuncts_cv.h
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AquaFuncts_io.c AquaFuncts_io.h
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AquaFuncts_pdb.c AquaFuncts_pdb.h
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AquaFuncts_pdbmr.c AquaFuncts_pdbmr.h
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AquaHow.c AquaHow.h
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AquaMacros.h
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AquaPseudo.c AquaPseudo.h
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AquaStrucset.c AquaStrucset.h
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AquaTypes.h
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AquaWhat.c AquaWhat.h
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Qext.c Qext.h
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Range.c Range.h
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cv_subs.h
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Script files:-
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------------
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ReadNrv.pm* convDIANAtorsrestr qdbext*
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aqdrst* convDISGEOdistrestr qguessc*
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aqpc* convDISGEOtorsrestr qguessr*
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aqpcsel convMRTABLE qhelp*
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aquanal.pl* convXPLORdistrestr qmodr*
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clean0* convXPLORtorsrestr qsplitr*
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convBIOSYMdistrestr makecmm* qsumm*
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convBIOSYMtorsrestr qconvert* qsumm_aux1*
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convDIANAdistrestr qconvr* qsumm_aux2*
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Documentation:-
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-------------
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README models.txt qconvr.txt
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aqpc.txt mr.txt qdbext.txt
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aqua_setup.txt names.txt qext.txt
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biosym.txt overview.txt qhelp.txt
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chains.txt perl.txt qsumm.txt
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conversion.txt procheck.txt restraint_format.txt
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dbas.txt qanal.txt setup.txt
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intro.txt qclean.txt torsion.txt
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log.txt qconvert.txt xplor.txt
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Extras:-
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------
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joinpdb* splitpdb*
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Please complete the above form, sign it, and then send or fax to:-
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Roman Laskowski
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European Bioinformatics Institute,
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Wellcome Trust Genome Campus,
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Hinxton,
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Cambridge, CB10 1SD,
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United Kingdom
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Fax:- +44 (0)1223 494 468
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If you have any problems either installing the software or running it,
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please e-mail your problems to:-
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roman@ebi.ac.uk
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Questions about AQUA should be directed to Ton Rullmann at
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rull@nmr.chem.ruu.nl
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