X-PLOR: V3.834 user: on: Alpha/OSF at: 27-Apr-96 13:37:21 Author: Axel T. Brunger Copyright: 1988-96 (Yale University), 1987 (Harvard University) X-PLOR>! make-rsf.inp -- Build RNA structure file X-PLOR>! Dave Schweisguth , 11 Apr 1996 X-PLOR>! Derived from generate/generatedna.inp X-PLOR> X-PLOR>set echo=off message=off end ! Normal use X-PLOR> X-PLOR>segment SEGMENT> name=a SEGMENT> chain CHAIN> link nuc head - * tail + * end CHAIN> first 5pho tail + * end ! Patches must precede sequence CHAIN> last 3ter head - * end CHAIN> sequence SEQUENCE> gua gua cyt ade gua gua gua SEGMNT: residue GUA 1 has been added to segment "A " PATCH: atom A 1 H5T added PATCH: atom A 1 O5T added MAPIC: Atom numbers being modified SEGMNT: 5PHO has been patched to GUA 1 SEGMNT: residue GUA 2 has been added to segment "A " PATCH: atom A 1 O3' specifications will be modified PATCH: atom A 2 P specifications will be modified PATCH: atom A 2 O1P specifications will be modified PATCH: atom A 2 O2P specifications will be modified PATCH: atom A 2 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to GUA 1 and GUA 2 SEGMNT: residue CYT 3 has been added to segment "A " PATCH: atom A 2 O3' specifications will be modified PATCH: atom A 3 P specifications will be modified PATCH: atom A 3 O1P specifications will be modified PATCH: atom A 3 O2P specifications will be modified PATCH: atom A 3 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to GUA 2 and CYT 3 SEGMNT: residue ADE 4 has been added to segment "A " PATCH: atom A 3 O3' specifications will be modified PATCH: atom A 4 P specifications will be modified PATCH: atom A 4 O1P specifications will be modified PATCH: atom A 4 O2P specifications will be modified PATCH: atom A 4 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to CYT 3 and ADE 4 SEGMNT: residue GUA 5 has been added to segment "A " PATCH: atom A 4 O3' specifications will be modified PATCH: atom A 5 P specifications will be modified PATCH: atom A 5 O1P specifications will be modified PATCH: atom A 5 O2P specifications will be modified PATCH: atom A 5 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to ADE 4 and GUA 5 SEGMNT: residue GUA 6 has been added to segment "A " PATCH: atom A 5 O3' specifications will be modified PATCH: atom A 6 P specifications will be modified PATCH: atom A 6 O1P specifications will be modified PATCH: atom A 6 O2P specifications will be modified PATCH: atom A 6 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to GUA 5 and GUA 6 SEGMNT: residue GUA 7 has been added to segment "A " PATCH: atom A 6 O3' specifications will be modified PATCH: atom A 7 P specifications will be modified PATCH: atom A 7 O1P specifications will be modified PATCH: atom A 7 O2P specifications will be modified PATCH: atom A 7 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to GUA 6 and GUA 7 SEQUence-element (terminate with END) = cyt uri cyt ade uri ade ade SEGMNT: residue CYT 8 has been added to segment "A " PATCH: atom A 7 O3' specifications will be modified PATCH: atom A 8 P specifications will be modified PATCH: atom A 8 O1P specifications will be modified PATCH: atom A 8 O2P specifications will be modified PATCH: atom A 8 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to GUA 7 and CYT 8 SEGMNT: residue URI 9 has been added to segment "A " PATCH: atom A 8 O3' specifications will be modified PATCH: atom A 9 P specifications will be modified PATCH: atom A 9 O1P specifications will be modified PATCH: atom A 9 O2P specifications will be modified PATCH: atom A 9 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to CYT 8 and URI 9 SEGMNT: residue CYT 10 has been added to segment "A " PATCH: atom A 9 O3' specifications will be modified PATCH: atom A 10 P specifications will be modified PATCH: atom A 10 O1P specifications will be modified PATCH: atom A 10 O2P specifications will be modified PATCH: atom A 10 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to URI 9 and CYT 10 SEGMNT: residue ADE 11 has been added to segment "A " PATCH: atom A 10 O3' specifications will be modified PATCH: atom A 11 P specifications will be modified PATCH: atom A 11 O1P specifications will be modified PATCH: atom A 11 O2P specifications will be modified PATCH: atom A 11 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to CYT 10 and ADE 11 SEGMNT: residue URI 12 has been added to segment "A " PATCH: atom A 11 O3' specifications will be modified PATCH: atom A 12 P specifications will be modified PATCH: atom A 12 O1P specifications will be modified PATCH: atom A 12 O2P specifications will be modified PATCH: atom A 12 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to ADE 11 and URI 12 SEGMNT: residue ADE 13 has been added to segment "A " PATCH: atom A 12 O3' specifications will be modified PATCH: atom A 13 P specifications will be modified PATCH: atom A 13 O1P specifications will be modified PATCH: atom A 13 O2P specifications will be modified PATCH: atom A 13 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to URI 12 and ADE 13 SEGMNT: residue ADE 14 has been added to segment "A " PATCH: atom A 13 O3' specifications will be modified PATCH: atom A 14 P specifications will be modified PATCH: atom A 14 O1P specifications will be modified PATCH: atom A 14 O2P specifications will be modified PATCH: atom A 14 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to ADE 13 and ADE 14 SEQUence-element (terminate with END) = cyt cyt cyt uri gua cyt cyt SEGMNT: residue CYT 15 has been added to segment "A " PATCH: atom A 14 O3' specifications will be modified PATCH: atom A 15 P specifications will be modified PATCH: atom A 15 O1P specifications will be modified PATCH: atom A 15 O2P specifications will be modified PATCH: atom A 15 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to ADE 14 and CYT 15 SEGMNT: residue CYT 16 has been added to segment "A " PATCH: atom A 15 O3' specifications will be modified PATCH: atom A 16 P specifications will be modified PATCH: atom A 16 O1P specifications will be modified PATCH: atom A 16 O2P specifications will be modified PATCH: atom A 16 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to CYT 15 and CYT 16 SEGMNT: residue CYT 17 has been added to segment "A " PATCH: atom A 16 O3' specifications will be modified PATCH: atom A 17 P specifications will be modified PATCH: atom A 17 O1P specifications will be modified PATCH: atom A 17 O2P specifications will be modified PATCH: atom A 17 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to CYT 16 and CYT 17 SEGMNT: residue URI 18 has been added to segment "A " PATCH: atom A 17 O3' specifications will be modified PATCH: atom A 18 P specifications will be modified PATCH: atom A 18 O1P specifications will be modified PATCH: atom A 18 O2P specifications will be modified PATCH: atom A 18 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to CYT 17 and URI 18 SEGMNT: residue GUA 19 has been added to segment "A " PATCH: atom A 18 O3' specifications will be modified PATCH: atom A 19 P specifications will be modified PATCH: atom A 19 O1P specifications will be modified PATCH: atom A 19 O2P specifications will be modified PATCH: atom A 19 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to URI 18 and GUA 19 SEGMNT: residue CYT 20 has been added to segment "A " PATCH: atom A 19 O3' specifications will be modified PATCH: atom A 20 P specifications will be modified PATCH: atom A 20 O1P specifications will be modified PATCH: atom A 20 O2P specifications will be modified PATCH: atom A 20 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to GUA 19 and CYT 20 SEGMNT: residue CYT 21 has been added to segment "A " PATCH: atom A 20 O3' specifications will be modified PATCH: atom A 21 P specifications will be modified PATCH: atom A 21 O1P specifications will be modified PATCH: atom A 21 O2P specifications will be modified PATCH: atom A 21 O5' specifications will be modified MAPIC: Atom numbers being modified SEGMNT: NUC has been patched to CYT 20 and CYT 21 SEQUence-element (terminate with END) = end PATCH: atom A 21 C3' specifications will be modified PATCH: atom A 21 O3' specifications will be modified PATCH: atom A 21 H3T added MAPIC: Atom numbers being modified SEGMNT: 3TER has been patched to CYT 21 CHAIN> end SEGMENT>end SEGMNT: 21 residues were inserted into segment "A " XPLOR: current counts (number in parenthesis is maximum) NATOM= 677(MAXA= 96000) NBOND= 728(MAXB= 96000) NTHETA= 1299(MAXT= 144000) NGRP= 218(MAXGRP= 96000) NPHI= 0(MAXP= 180000) NIMPHI= 461(MAXIMP= 96000) NDON= 68(MAXPAD= 24000) NACC= 105(MAXPAD= 24000) NNB= 63(MAXNB= 18000) X-PLOR> X-PLOR>write structure output=rsf.inp end ASSFIL: file /sgi/people/dcs/ws/xplor/italy2.4x/rsf.inp opened. X-PLOR> X-PLOR>stop CSTACK: size= 200000 used= 827 current= 0 HEAP: maximum use= 52583 current use= 0 X-PLOR: total CPU time= 0.2499 s X-PLOR: entry time at 13:37:21 27-Apr-96 X-PLOR: exit time at 13:37:22 27-Apr-96