diff test-data/rdock/1nem_rdock.mol2 @ 0:bc03dbb6eb37 draft

planemo upload commit 781926e52355f7805db8d9a4ccafeff397b19aa4-dirty
author marpiech
date Mon, 29 Aug 2016 03:38:13 -0400
parents
children
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/rdock/1nem_rdock.mol2	Mon Aug 29 03:38:13 2016 -0400
@@ -0,0 +1,1582 @@
+@<TRIPOS>MOLECULE
+1NEM.A
+744 803 23 0 0 
+BIOPOLYMER
+USER_CHARGES
+
+
+@<TRIPOS>ATOM
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+  2 HO5'     4.0460    15.1580   -10.1580 H      1 G5_4    0.4000 
+  3 C5'      4.1720    16.1450    -8.5140 C.3    1 G5_4    0.1200 BACKBONE
+  4 C4'      4.9570    16.0660    -7.1940 C.3    1 G5_4    0.2000 BACKBONE
+  5 O4'      4.4250    17.0320    -6.2290 O.3    1 G5_4   -0.5600 
+  6 C3'      4.8270    14.7290    -6.4540 C.3    1 G5_4    0.2000 BACKBONE
+  7 O3'      5.6330    13.6980    -7.0410 O.3    1 G5_4   -0.5512 BACKBONE
+  8 C2'      5.1950    15.1160    -5.0130 C.3    1 G5_4    0.2000 
+  9 O2'      6.6050    15.1930    -4.7900 O.3    1 G5_4   -0.6800 
+ 10 HO2'     6.7984    14.4889    -4.1603 H      1 G5_4    0.4000 
+ 11 C1'      4.5330    16.5070    -4.8910 C.3    1 G5_4    0.4556 
+ 12 N9       3.1770    16.5250    -4.2520 N.pl3  1 G5_4    0.0476 
+ 13 C8       1.9490    16.4030    -4.8450 C.2    1 G5_4    0.0365 
+ 14 N7       0.9320    16.4630    -4.0240 N.2    1 G5_4   -0.5653 
+ 15 C5       1.4990    16.6270    -2.7880 C.2    1 G5_4    0.1412 
+ 16 C6       0.8630    16.7470    -1.5420 C.2    1 G5_4    0.7160 
+ 17 O6      -0.3580    16.7180    -1.3500 O.2    1 G5_4   -0.5700 
+ 18 N1       1.8000    16.9090    -0.4950 N.am   1 G5_4   -0.4900 
+ 19 C2       3.1870    16.9490    -0.6310 C.2    1 G5_4    0.5600 
+ 20 N2       3.8300    17.1190     0.5470 N.pl3  1 G5_4   -0.8500 
+ 21 N3       3.7710    16.8300    -1.8480 N.2    1 G5_4   -0.5760 
+ 22 C4       2.8930    16.6720    -2.8780 C.2    1 G5_4   -0.0256 
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+ 27 H2'      4.7690    14.4120    -4.2780 H      1 G5_4    0.0800 
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+ 29 H8       1.8910    16.2730    -5.9250 H      1 G5_4    0.1500 
+ 30 H1       1.3940    17.0030     0.4270 H      1 G5_4    0.3700 
+ 31 H21      3.3080    17.1950     1.4020 H      1 G5_4    0.4000 
+ 32 H22      4.8280    17.1550     0.5420 H      1 G5_4    0.4000 
+ 33 P        5.3830    12.1570    -6.7190 P.3    2 G5      1.4424 BACKBONE
+ 34 OP1      5.8690    11.3550    -7.8620 O.co2  2 G5     -0.9500 BACKBONE
+ 35 OP2      3.9730    11.9590    -6.2990 O.co2  2 G5     -0.9500 BACKBONE
+ 36 O5'      6.3610    11.9450    -5.4800 O.3    2 G5     -0.5512 BACKBONE
+ 37 C5'      6.1080    10.9480    -4.4870 C.3    2 G5      0.1200 BACKBONE
+ 38 C4'      6.5680    11.4070    -3.0800 C.3    2 G5      0.2000 BACKBONE
+ 39 O4'      6.0690    12.7570    -2.7770 O.3    2 G5     -0.5600 
+ 40 C3'      6.0170    10.5140    -1.9530 C.3    2 G5      0.2000 BACKBONE
+ 41 O3'      6.9200     9.4420    -1.6390 O.3    2 G5     -0.5512 BACKBONE
+ 42 C2'      5.7430    11.4940    -0.7960 C.3    2 G5      0.2000 
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+ 46 N9       3.8770    12.9500    -1.8580 N.pl3  2 G5      0.0476 
+ 47 C8       3.2200    12.8280    -3.0530 C.2    2 G5      0.0365 
+ 48 N7       1.9340    13.0530    -3.0000 N.2    2 G5     -0.5653 
+ 49 C5       1.6960    13.3480    -1.6850 C.2    2 G5      0.1412 
+ 50 C6       0.4810    13.6670    -1.0700 C.2    2 G5      0.7160 
+ 51 O6      -0.6140    13.7290    -1.6390 O.2    2 G5     -0.5700 
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+ 53 C2       1.8510    13.8500     1.0150 C.2    2 G5      0.5600 
+ 54 N2       1.7040    14.1260     2.3260 N.pl3  2 G5     -0.8500 
+ 55 N3       3.0070    13.5400     0.3930 N.2    2 G5     -0.5760 
+ 56 C4       2.8740    13.3010    -0.9380 C.2    2 G5     -0.0256 
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+ 63 H8       3.7860    12.5740    -3.9480 H      2 G5      0.1500 
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+ 65 H22      0.7990    14.3470     2.6950 H      2 G5      0.4000 
+ 66 H21      2.5060    14.1140     2.9190 H      2 G5      0.4000 
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+ 68 OP1      7.5250     7.0940    -1.0380 O.co2  3 A6     -0.9500 BACKBONE
+ 69 OP2      5.1270     7.6730    -1.6010 O.co2  3 A6     -0.9500 BACKBONE
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+ 72 C4'      4.9420     8.7520     2.6220 C.3    3 A6      0.2000 BACKBONE
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+ 85 N6      -1.8910    11.2070    -0.1680 N.pl3  3 A6     -0.9000 
+ 86 N1      -1.8770    11.4060     2.2490 N.ar   3 A6     -0.6200 
+ 87 C2      -1.1620    11.3420     3.3800 C.ar   3 A6      0.4700 
+ 88 N3       0.1350    11.0710     3.5440 N.ar   3 A6     -0.5670 
+ 89 C4       0.7330    10.8410     2.3480 C.ar   3 A6      0.1054 
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+ 92 H4'      5.8950     8.8880     3.1770 H      3 A6      0.0800 
+ 93 H3'      3.1450     7.5460     2.8640 H      3 A6      0.0800 
+ 94 H2'      2.0650     9.0050     4.3530 H      3 A6      0.0800 
+ 95 H1'      3.3390    11.3480     3.5670 H      3 A6      0.0800 
+ 96 H8       3.0820    10.1750     0.2160 H      3 A6      0.1500 
+ 97 H62     -2.8730    11.4230    -0.2290 H      3 A6      0.4000 
+ 98 H61     -1.3550    11.0330    -0.9950 H      3 A6      0.4000 
+ 99 H2      -1.7190    11.5350     4.3000 H      3 A6      0.1500 
+100 P        3.8860     5.8230     4.9110 P.3    4 C7      1.4424 BACKBONE
+101 OP1      4.9260     5.0080     5.5820 O.co2  4 C7     -0.9500 BACKBONE
+102 OP2      3.1910     5.1620     3.7780 O.co2  4 C7     -0.9500 BACKBONE
+103 O5'      2.8420     6.3190     6.0020 O.3    4 C7     -0.5512 BACKBONE
+104 C5'      1.5830     5.6710     6.1670 C.3    4 C7      0.1200 BACKBONE
+105 C4'      0.5510     6.5960     6.8380 C.3    4 C7      0.2000 BACKBONE
+106 O4'      0.3930     7.8360     6.0710 O.3    4 C7     -0.5600 
+107 C3'     -0.8520     5.9790     6.8780 C.3    4 C7      0.2000 BACKBONE
+108 O3'     -1.0590     5.2200     8.0820 O.3    4 C7     -0.5512 BACKBONE
+109 C2'     -1.7860     7.1920     6.7490 C.3    4 C7      0.2000 
+110 O2'     -1.9850     7.8440     8.0060 O.3    4 C7     -0.6800 
+111 HO2'    -1.7640     7.1650     8.6540 H      4 C7      0.4000 
+112 C1'     -0.9850     8.1040     5.7770 C.3    4 C7      0.5001 
+113 N1      -1.2650     7.9890     4.2780 N.am   4 C7     -0.4691 
+114 C2      -2.5950     8.2820     3.7750 C.2    4 C7      0.8410 
+115 O2      -3.5400     8.5980     4.5230 O.2    4 C7     -0.5700 
+116 N3      -2.8130     8.1910     2.4160 N.2    4 C7     -0.6610 
+117 C4      -1.8320     7.8570     1.5490 C.2    4 C7      0.4856 
+118 N4      -2.0950     7.7780     0.2180 N.pl3  4 C7     -0.8500 
+119 C5      -0.5060     7.5810     2.0280 C.2    4 C7     -0.1356 
+120 C6      -0.2720     7.6570     3.3460 C.2    4 C7     -0.0410 
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+122 H5''     1.1710     5.3450     5.1820 H      4 C7      0.0800 
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+124 H3'     -1.0100     5.3540     5.9650 H      4 C7      0.0800 
+125 H2'     -2.7700     6.8990     6.3340 H      4 C7      0.0800 
+126 H1'     -1.1300     9.1700     6.0590 H      4 C7      0.0800 
+127 H42     -3.0250     7.9890    -0.0900 H      4 C7      0.4000 
+128 H41     -1.3740     7.5390    -0.4300 H      4 C7      0.4000 
+129 H5       0.2840     7.3130     1.3270 H      4 C7      0.1500 
+130 H6       0.7290     7.4490     3.7200 H      4 C7      0.1500 
+131 P       -1.6200     3.7320     8.0690 P.3    5 U8      1.4424 BACKBONE
+132 OP1     -1.6420     3.2400     9.4660 O.co2  5 U8     -0.9500 BACKBONE
+133 OP2     -0.8510     2.9280     7.0840 O.co2  5 U8     -0.9500 BACKBONE
+134 O5'     -3.1060     3.9270     7.5280 O.3    5 U8     -0.5512 BACKBONE
+135 C5'     -4.1450     4.3940     8.4000 C.3    5 U8      0.1200 BACKBONE
+136 C4'     -5.5190     4.5500     7.7020 C.3    5 U8      0.2000 BACKBONE
+137 O4'     -5.4680     5.5890     6.6670 O.3    5 U8     -0.5600 
+138 C3'     -6.0070     3.3090     6.9500 C.3    5 U8      0.2000 BACKBONE
+139 O3'     -6.5410     2.2900     7.8090 O.3    5 U8     -0.5512 BACKBONE
+140 C2'     -6.9820     3.8870     5.9160 C.3    5 U8      0.2000 
+141 O2'     -8.3000     4.0970     6.4190 O.3    5 U8     -0.6800 
+142 HO2'    -8.8604     3.5044     5.9056 H      5 U8      0.4000 
+143 C1'     -6.3090     5.2280     5.5510 C.3    5 U8      0.5001 
+144 N1      -5.5190     5.1930     4.2620 N.am   5 U8     -0.4691 
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+146 O2      -7.4850     5.5120     2.9680 O.2    5 U8     -0.5700 
+147 N3      -5.4810     5.3020     1.8870 N.am   5 U8     -0.4900 
+148 C4      -4.0940     5.1210     1.7840 C.2    5 U8      0.6156 
+149 O4      -3.5470     5.1020     0.6750 O.2    5 U8     -0.5700 
+150 C5      -3.4170     4.9640     3.0590 C.2    5 U8     -0.1356 
+151 C6      -4.1280     5.0020     4.2060 C.2    5 U8     -0.0410 
+152 H5'     -3.8640     5.3800     8.8350 H      5 U8      0.0800 
+153 H5''    -4.2720     3.6740     9.2410 H      5 U8      0.0800 
+154 H4'     -6.2780     4.8750     8.4480 H      5 U8      0.0800 
+155 H3'     -5.1360     2.9040     6.3900 H      5 U8      0.0800 
+156 H2'     -7.0540     3.2180     5.0360 H      5 U8      0.0800 
+157 H1'     -7.1020     6.0070     5.4760 H      5 U8      0.0800 
+158 H3      -6.0070     5.4170     1.0220 H      5 U8      0.3700 
+159 H5      -2.3380     4.8190     3.0720 H      5 U8      0.1500 
+160 H6      -3.6240     4.8850     5.1650 H      5 U8      0.1500 
+161 P       -6.7610     0.8050     7.2750 P.3    6 G9      1.4424 BACKBONE
+162 OP1     -6.8130    -0.1330     8.4170 O.co2  6 G9     -0.9500 BACKBONE
+163 OP2     -5.7710     0.4960     6.2110 O.co2  6 G9     -0.9500 BACKBONE
+164 O5'     -8.2100     0.9500     6.6330 O.3    6 G9     -0.5512 BACKBONE
+165 C5'     -8.6350     0.0680     5.5970 C.3    6 G9      0.1200 BACKBONE
+166 C4'     -9.8920     0.6000     4.8820 C.3    6 G9      0.2000 BACKBONE
+167 O4'     -9.6390     1.9090     4.2620 O.3    6 G9     -0.5600 
+168 C3'    -10.3150    -0.2910     3.7100 C.3    6 G9      0.2000 BACKBONE
+169 O3'    -11.1380    -1.3780     4.1370 O.3    6 G9     -0.5512 BACKBONE
+170 C2'    -11.0420     0.6810     2.7770 C.3    6 G9      0.2000 
+171 O2'    -12.4020     0.9110     3.1680 O.3    6 G9     -0.6800 
+172 HO2'   -12.7020     0.0540     3.4910 H      6 G9      0.4000 
+173 C1'    -10.1850     1.9610     2.9340 C.3    6 G9      0.4556 
+174 N9      -9.0530     2.1580     1.9650 N.pl3  6 G9      0.0476 
+175 C8      -7.7100     2.2570     2.2150 C.2    6 G9      0.0365 
+176 N7      -6.9620     2.4510     1.1560 N.2    6 G9     -0.5653 
+177 C5      -7.8540     2.4930     0.1150 C.2    6 G9      0.1412 
+178 C6      -7.6040     2.6750    -1.2550 C.2    6 G9      0.7160 
+179 O6      -6.4970     2.8470    -1.7760 O.2    6 G9     -0.5700 
+180 N1      -8.7990     2.6550    -2.0080 N.am   6 G9     -0.4900 
+181 C2     -10.0870     2.4830    -1.5010 C.2    6 G9      0.5600 
+182 N2     -11.0530     2.5030    -2.4450 N.pl3  6 G9     -0.8500 
+183 N3     -10.2950     2.3070    -0.1800 N.2    6 G9     -0.5760 
+184 C4      -9.1640     2.3200     0.5730 C.2    6 G9     -0.0256 
+185 H5'     -8.8730    -0.9270     6.0390 H      6 G9      0.0800 
+186 H5''    -7.8290    -0.0700     4.8410 H      6 G9      0.0800 
+187 H4'    -10.7240     0.7330     5.6070 H      6 G9      0.0800 
+188 H3'     -9.4030    -0.6550     3.1720 H      6 G9      0.0800 
+189 H2'    -11.0290     0.3250     1.7310 H      6 G9      0.0800 
+190 H1'    -10.8510     2.8440     2.8420 H      6 G9      0.0800 
+191 H8      -7.3590     2.1690     3.2410 H      6 G9      0.1500 
+192 H1      -8.6870     2.7750    -3.0060 H      6 G9      0.3700 
+193 H21    -10.8330     2.6320    -3.4100 H      6 G9      0.4000 
+194 H22    -11.9990     2.3840    -2.1510 H      6 G9      0.4000 
+195 P      -10.9130    -2.8770     3.6620 P.3    7 G10     1.4424 BACKBONE
+196 OP1    -11.8990    -3.7210     4.3800 O.co2  7 G10    -0.9500 BACKBONE
+197 OP2     -9.4800    -3.2280     3.7980 O.co2  7 G10    -0.9500 BACKBONE
+198 O5'    -11.2750    -2.8160     2.1160 O.3    7 G10    -0.5512 BACKBONE
+199 C5'    -12.6350    -2.6790     1.6940 C.3    7 G10     0.1200 BACKBONE
+200 C4'    -12.7620    -2.2380     0.2220 C.3    7 G10     0.2000 BACKBONE
+201 O4'    -11.9690    -1.0330    -0.0360 O.3    7 G10    -0.5600 
+202 C3'    -12.2420    -3.2360    -0.8140 C.3    7 G10     0.2000 BACKBONE
+203 O3'    -13.1540    -4.3180    -1.0550 O.3    7 G10    -0.5512 BACKBONE
+204 C2'    -12.0250    -2.3350    -2.0390 C.3    7 G10     0.2000 
+205 O2'    -13.2320    -2.0570    -2.7530 O.3    7 G10    -0.6800 
+206 HO2'   -13.6330    -2.9230    -2.8770 H      7 G10     0.4000 
+207 C1'    -11.4630    -1.0570    -1.3780 C.3    7 G10     0.4556 
+208 N9      -9.9750    -0.9200    -1.4140 N.pl3  7 G10     0.0476 
+209 C8      -9.0740    -0.7800    -0.3970 C.2    7 G10     0.0365 
+210 N7      -7.8280    -0.6500    -0.7890 N.2    7 G10    -0.5653 
+211 C5      -7.8910    -0.7040    -2.1600 C.2    7 G10     0.1412 
+212 C6      -6.8520    -0.6240    -3.1020 C.2    7 G10     0.7160 
+213 O6      -5.6550    -0.4720    -2.8450 O.2    7 G10    -0.5700 
+214 N1      -7.3420    -0.7290    -4.4330 N.am   7 G10    -0.4900 
+215 C2      -8.6740    -0.8840    -4.8030 C.2    7 G10     0.5600 
+216 N2      -8.8570    -0.9480    -6.1390 N.pl3  7 G10    -0.8500 
+217 N3      -9.6400    -0.9560    -3.8700 N.2    7 G10    -0.5760 
+218 C4      -9.2040    -0.8650    -2.5870 C.2    7 G10    -0.0256 
+219 H5'    -13.1650    -1.9220     2.3180 H      7 G10     0.0800 
+220 H5''   -13.1630    -3.6510     1.8260 H      7 G10     0.0800 
+221 H4'    -13.8260    -1.9880     0.0090 H      7 G10     0.0800 
+222 H3'    -11.2450    -3.6140    -0.4730 H      7 G10     0.0800 
+223 H2'    -11.2990    -2.7930    -2.7420 H      7 G10     0.0800 
+224 H1'    -11.8420    -0.1440    -1.8650 H      7 G10     0.0800 
+225 H8      -9.4330    -0.7840     0.6310 H      7 G10     0.1500 
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+339 HO2'    -3.2000   -14.2060     4.6520 H     11 A14     0.4000 
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+426 H61     -4.1080     1.3740     5.6710 H     13 A16     0.4000 
+427 H2      -0.0020     1.2180     2.3210 H     13 A16     0.1500 
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+436 O3'      6.6270    -4.9630     1.9800 O.3   14 A17    -0.5512 BACKBONE
+437 C2'      5.6080    -6.8870     0.7750 C.3   14 A17     0.2000 
+438 O2'      6.9580    -7.3140     0.5850 O.3   14 A17    -0.6800 
+439 HO2'     7.4640    -6.5180     0.7850 H     14 A17     0.4000 
+440 C1'      4.7200    -8.0490     1.2870 C.3   14 A17     0.4556 
+441 N9       3.4460    -8.3050     0.5340 N.pl3 14 A17     0.0476 
+442 C8       2.1400    -8.2020     0.9580 C.2   14 A17     0.0365 
+443 N7       1.2500    -8.5160     0.0540 N.2   14 A17    -0.5653 
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+451 H5'      3.6060    -5.5460     3.9560 H     14 A17     0.0800 
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+@<TRIPOS>SUBSTRUCTURE
+  1 G5_4   12 RESIDUE 4 A G5 1
+  2 G5     33 RESIDUE 4 A rG 2
+  3 A6     67 RESIDUE 4 A rA 2
+  4 C7    100 RESIDUE 4 A rC 2
+  5 U8    131 RESIDUE 4 A rU 2
+  6 G9    161 RESIDUE 4 A rG 2
+  7 G10   195 RESIDUE 4 A rG 2
+  8 G11   229 RESIDUE 4 A rG 2
+  9 C12   263 RESIDUE 4 A rC 2
+ 10 G13   294 RESIDUE 4 A rG 2
+ 11 A14   328 RESIDUE 4 A rA 2
+ 12 G15   361 RESIDUE 4 A rG 2
+ 13 A16   395 RESIDUE 4 A rA 2
+ 14 A17   428 RESIDUE 4 A rA 2
+ 15 G18   461 RESIDUE 4 A rG 2
+ 16 U19   495 RESIDUE 4 A rU 2
+ 17 U20   525 RESIDUE 4 A rU 2
+ 18 U21   555 RESIDUE 4 A rU 2
+ 19 A22   585 RESIDUE 4 A rA 2
+ 20 G23   618 RESIDUE 4 A rG 2
+ 21 U24   652 RESIDUE 4 A rU 2
+ 22 C25   682 RESIDUE 4 A rC 2
+ 23 C3_26 713 RESIDUE 4 A C3 1
+
+# MOE 2011.10 (io_trps.svl 2011.10)