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ViennaRNA · May 2, 2014 · 6255206 · 6255206
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diff --git a/forgi/threedee/data/ideal_1_10_11_20.pdb b/forgi/threedee/data/ideal_1_10_11_20.pdb
diff --git a/forgi/threedee/data/ideal_1_11_12_22.pdb b/forgi/threedee/data/ideal_1_11_12_22.pdb
diff --git a/forgi/threedee/data/ideal_1_12_13_24.pdb b/forgi/threedee/data/ideal_1_12_13_24.pdb
diff --git a/forgi/threedee/data/ideal_1_13_14_26.pdb b/forgi/threedee/data/ideal_1_13_14_26.pdb
diff --git a/forgi/threedee/data/ideal_1_14_15_28.pdb b/forgi/threedee/data/ideal_1_14_15_28.pdb
diff --git a/forgi/threedee/data/ideal_1_15_16_30.pdb b/forgi/threedee/data/ideal_1_15_16_30.pdb
diff --git a/forgi/threedee/data/ideal_1_16_17_32.pdb b/forgi/threedee/data/ideal_1_16_17_32.pdb
diff --git a/forgi/threedee/data/ideal_1_17_18_34.pdb b/forgi/threedee/data/ideal_1_17_18_34.pdb
diff --git a/forgi/threedee/data/ideal_1_18_19_36.pdb b/forgi/threedee/data/ideal_1_18_19_36.pdb
diff --git a/forgi/threedee/data/ideal_1_19_20_38.pdb b/forgi/threedee/data/ideal_1_19_20_38.pdb
diff --git a/forgi/threedee/data/ideal_1_1_2_2.pdb b/forgi/threedee/data/ideal_1_1_2_2.pdb
@@ -0,0 +1,42 @@
+ATOM      1  P     A A   1       3.063   8.025  -4.135  1.00  1.00           P  
+ATOM      2  O1P   A A   1       3.223   8.856  -5.350  1.00  1.00           O  
+ATOM      3  O2P   A A   1       1.891   7.121  -4.118  1.00  1.00           O  
+ATOM      4  O5'   A A   1       4.396   7.181  -3.881  1.00  1.00           O  
+ATOM      5  C5'   A A   1       5.621   7.881  -3.587  1.00  1.00           C  
+ATOM      6  C4'   A A   1       6.719   6.889  -3.258  1.00  1.00           C  
+ATOM      7  O4'   A A   1       6.486   6.364  -1.919  1.00  1.00           O  
+ATOM      8  C3'   A A   1       6.776   5.642  -4.140  1.00  1.00           C  
+ATOM      9  O3'   A A   1       7.397   5.908  -5.390  1.00  1.00           O  
+ATOM     10  C2'   A A   1       7.567   4.725  -3.208  1.00  1.00           C  
+ATOM     11  O2'   A A   1       8.962   4.911  -3.068  1.00  1.00           O  
+ATOM     12  C1'   A A   1       6.874   4.999  -1.877  1.00  1.00           C  
+ATOM     13  N9    A A   1       5.666   4.158  -1.647  1.00  1.00           N  
+ATOM     14  C8    A A   1       4.345   4.449  -1.900  1.00  1.00           C  
+ATOM     15  N7    A A   1       3.524   3.496  -1.584  1.00  1.00           N  
+ATOM     16  C5    A A   1       4.348   2.496  -1.086  1.00  1.00           C  
+ATOM     17  C6    A A   1       4.082   1.215  -0.578  1.00  1.00           C  
+ATOM     18  N6    A A   1       2.849   0.697  -0.485  1.00  1.00           N  
+ATOM     19  N1    A A   1       5.134   0.481  -0.167  1.00  1.00           N  
+ATOM     20  C2    A A   1       6.356   1.001  -0.262  1.00  1.00           C  
+ATOM     21  N3    A A   1       6.725   2.179  -0.716  1.00  1.00           N  
+ATOM     22  C4    A A   1       5.655   2.893  -1.121  1.00  1.00           C  
+ATOM     23  P     U A   2       3.063  -8.025   4.135  1.00  1.00           P  
+ATOM     24  O1P   U A   2       3.223  -8.856   5.350  1.00  1.00           O  
+ATOM     25  O2P   U A   2       1.891  -7.121   4.118  1.00  1.00           O  
+ATOM     26  O5'   U A   2       4.397  -7.181   3.881  1.00  1.00           O  
+ATOM     27  C5'   U A   2       5.621  -7.881   3.587  1.00  1.00           C  
+ATOM     28  C4'   U A   2       6.719  -6.889   3.258  1.00  1.00           C  
+ATOM     29  O4'   U A   2       6.486  -6.364   1.919  1.00  1.00           O  
+ATOM     30  C3'   U A   2       6.776  -5.642   4.140  1.00  1.00           C  
+ATOM     31  O3'   U A   2       7.397  -5.908   5.390  1.00  1.00           O  
+ATOM     32  C2'   U A   2       7.567  -4.725   3.208  1.00  1.00           C  
+ATOM     33  O2'   U A   2       8.962  -4.910   3.068  1.00  1.00           O  
+ATOM     34  C1'   U A   2       6.874  -4.999   1.877  1.00  1.00           C  
+ATOM     35  N1    U A   2       5.666  -4.158   1.647  1.00  1.00           N  
+ATOM     36  C2    U A   2       5.867  -2.911   1.107  1.00  1.00           C  
+ATOM     37  O2    U A   2       6.971  -2.482   0.819  1.00  1.00           O  
+ATOM     38  N3    U A   2       4.725  -2.160   0.908  1.00  1.00           N  
+ATOM     39  C4    U A   2       3.431  -2.543   1.197  1.00  1.00           C  
+ATOM     40  O4    U A   2       2.487  -1.783   0.974  1.00  1.00           O  
+ATOM     41  C5    U A   2       3.322  -3.869   1.760  1.00  1.00           C  
+ATOM     42  C6    U A   2       4.416  -4.621   1.964  1.00  1.00           C  
diff --git a/forgi/threedee/data/ideal_1_20_21_40.pdb b/forgi/threedee/data/ideal_1_20_21_40.pdb
diff --git a/forgi/threedee/data/ideal_1_21_22_42.pdb b/forgi/threedee/data/ideal_1_21_22_42.pdb
diff --git a/forgi/threedee/data/ideal_1_22_23_44.pdb b/forgi/threedee/data/ideal_1_22_23_44.pdb
diff --git a/forgi/threedee/data/ideal_1_23_24_46.pdb b/forgi/threedee/data/ideal_1_23_24_46.pdb
diff --git a/forgi/threedee/data/ideal_1_24_25_48.pdb b/forgi/threedee/data/ideal_1_24_25_48.pdb
diff --git a/forgi/threedee/data/ideal_1_25_26_50.pdb b/forgi/threedee/data/ideal_1_25_26_50.pdb
diff --git a/forgi/threedee/data/ideal_1_26_27_52.pdb b/forgi/threedee/data/ideal_1_26_27_52.pdb
diff --git a/forgi/threedee/data/ideal_1_27_28_54.pdb b/forgi/threedee/data/ideal_1_27_28_54.pdb
diff --git a/forgi/threedee/data/ideal_1_28_29_56.pdb b/forgi/threedee/data/ideal_1_28_29_56.pdb
diff --git a/forgi/threedee/data/ideal_1_29_30_58.pdb b/forgi/threedee/data/ideal_1_29_30_58.pdb
diff --git a/forgi/threedee/data/ideal_1_2_3_4.pdb b/forgi/threedee/data/ideal_1_2_3_4.pdb
@@ -0,0 +1,85 @@
+ATOM      1  P     C A   1       3.063   8.025  -4.135  1.00  1.00           P  
+ATOM      2  O1P   C A   1       3.223   8.856  -5.350  1.00  1.00           O  
+ATOM      3  O2P   C A   1       1.891   7.121  -4.118  1.00  1.00           O  
+ATOM      4  O5'   C A   1       4.397   7.181  -3.881  1.00  1.00           O  
+ATOM      5  C5'   C A   1       5.620   7.882  -3.587  1.00  1.00           C  
+ATOM      6  C4'   C A   1       6.719   6.889  -3.258  1.00  1.00           C  
+ATOM      7  O4'   C A   1       6.486   6.363  -1.919  1.00  1.00           O  
+ATOM      8  C3'   C A   1       6.776   5.642  -4.140  1.00  1.00           C  
+ATOM      9  O3'   C A   1       7.398   5.908  -5.390  1.00  1.00           O  
+ATOM     10  C2'   C A   1       7.567   4.725  -3.208  1.00  1.00           C  
+ATOM     11  O2'   C A   1       8.962   4.910  -3.069  1.00  1.00           O  
+ATOM     12  C1'   C A   1       6.874   5.000  -1.877  1.00  1.00           C  
+ATOM     13  N1    C A   1       5.666   4.158  -1.647  1.00  1.00           N  
+ATOM     14  C2    C A   1       5.853   2.891  -1.100  1.00  1.00           C  
+ATOM     15  O2    C A   1       7.001   2.521  -0.831  1.00  1.00           O  
+ATOM     16  N3    C A   1       4.764   2.108  -0.883  1.00  1.00           N  
+ATOM     17  C4    C A   1       3.536   2.547  -1.188  1.00  1.00           C  
+ATOM     18  N4    C A   1       2.508   1.746  -0.956  1.00  1.00           N  
+ATOM     19  C5    C A   1       3.323   3.847  -1.751  1.00  1.00           C  
+ATOM     20  C6    C A   1       4.423   4.613  -1.961  1.00  1.00           C  
+ATOM     21  P     U A   2       6.913   5.099  -6.683  1.00  1.00           P  
+ATOM     22  O1P   U A   2       7.496   5.711  -7.898  1.00  1.00           O  
+ATOM     23  O2P   U A   2       5.439   4.971  -6.666  1.00  1.00           O  
+ATOM     24  O5'   U A   2       7.579   3.667  -6.429  1.00  1.00           O  
+ATOM     25  C5'   U A   2       8.988   3.595  -6.135  1.00  1.00           C  
+ATOM     26  C4'   U A   2       9.376   2.167  -5.806  1.00  1.00           C  
+ATOM     27  O4'   U A   2       8.896   1.851  -4.467  1.00  1.00           O  
+ATOM     28  C3'   U A   2       8.750   1.087  -6.688  1.00  1.00           C  
+ATOM     29  O3'   U A   2       9.417   0.975  -7.938  1.00  1.00           O  
+ATOM     30  C2'   U A   2       8.920  -0.112  -5.756  1.00  1.00           C  
+ATOM     31  O2'   U A   2      10.194  -0.710  -5.616  1.00  1.00           O  
+ATOM     32  C1'   U A   2       8.486   0.493  -4.425  1.00  1.00           C  
+ATOM     33  N1    U A   2       7.014   0.438  -4.195  1.00  1.00           N  
+ATOM     34  C2    U A   2       6.509  -0.720  -3.655  1.00  1.00           C  
+ATOM     35  O2    U A   2       7.207  -1.677  -3.367  1.00  1.00           O  
+ATOM     36  N3    U A   2       5.143  -0.735  -3.456  1.00  1.00           N  
+ATOM     37  C4    U A   2       4.261   0.286  -3.745  1.00  1.00           C  
+ATOM     38  O4    U A   2       3.056   0.157  -3.522  1.00  1.00           O  
+ATOM     39  C5    U A   2       4.885   1.461  -4.308  1.00  1.00           C  
+ATOM     40  C6    U A   2       6.213   1.503  -4.512  1.00  1.00           C  
+ATOM     41  P     A A   3      -1.758  -8.408   1.587  1.00  1.00           P  
+ATOM     42  O1P   A A   3      -2.072  -9.193   2.802  1.00  1.00           O  
+ATOM     43  O2P   A A   3      -2.256  -7.014   1.570  1.00  1.00           O  
+ATOM     44  O5'   A A   3      -0.180  -8.418   1.333  1.00  1.00           O  
+ATOM     45  C5'   A A   3       0.473  -9.668   1.039  1.00  1.00           C  
+ATOM     46  C4'   A A   3       1.932  -9.427   0.710  1.00  1.00           C  
+ATOM     47  O4'   A A   3       2.020  -8.860  -0.629  1.00  1.00           O  
+ATOM     48  C3'   A A   3       2.654  -8.408   1.592  1.00  1.00           C  
+ATOM     49  O3'   A A   3       3.033  -8.968   2.842  1.00  1.00           O  
+ATOM     50  C2'   A A   3       3.815  -8.064   0.660  1.00  1.00           C  
+ATOM     51  O2'   A A   3       4.888  -8.974   0.520  1.00  1.00           O  
+ATOM     52  C1'   A A   3       3.084  -7.921  -0.671  1.00  1.00           C  
+ATOM     53  N9    A A   3       2.522  -6.560  -0.901  1.00  1.00           N  
+ATOM     54  C8    A A   3       1.253  -6.091  -0.648  1.00  1.00           C  
+ATOM     55  N7    A A   3       1.077  -4.846  -0.964  1.00  1.00           N  
+ATOM     56  C5    A A   3       2.310  -4.449  -1.462  1.00  1.00           C  
+ATOM     57  C6    A A   3       2.779  -3.228  -1.970  1.00  1.00           C  
+ATOM     58  N6    A A   3       2.021  -2.126  -2.063  1.00  1.00           N  
+ATOM     59  N1    A A   3       4.060  -3.178  -2.381  1.00  1.00           N  
+ATOM     60  C2    A A   3       4.808  -4.276  -2.286  1.00  1.00           C  
+ATOM     61  N3    A A   3       4.482  -5.467  -1.832  1.00  1.00           N  
+ATOM     62  C4    A A   3       3.196  -5.489  -1.427  1.00  1.00           C  
+ATOM     63  P     G A   4       3.063  -8.025   4.135  1.00  1.00           P  
+ATOM     64  O1P   G A   4       3.223  -8.856   5.350  1.00  1.00           O  
+ATOM     65  O2P   G A   4       1.891  -7.121   4.118  1.00  1.00           O  
+ATOM     66  O5'   G A   4       4.397  -7.181   3.881  1.00  1.00           O  
+ATOM     67  C5'   G A   4       5.621  -7.881   3.587  1.00  1.00           C  
+ATOM     68  C4'   G A   4       6.719  -6.889   3.258  1.00  1.00           C  
+ATOM     69  O4'   G A   4       6.486  -6.363   1.919  1.00  1.00           O  
+ATOM     70  C3'   G A   4       6.775  -5.642   4.140  1.00  1.00           C  
+ATOM     71  O3'   G A   4       7.398  -5.908   5.390  1.00  1.00           O  
+ATOM     72  C2'   G A   4       7.567  -4.726   3.208  1.00  1.00           C  
+ATOM     73  O2'   G A   4       8.961  -4.911   3.068  1.00  1.00           O  
+ATOM     74  C1'   G A   4       6.874  -4.999   1.877  1.00  1.00           C  
+ATOM     75  N9    G A   4       5.666  -4.158   1.647  1.00  1.00           N  
+ATOM     76  C8    G A   4       4.342  -4.447   1.899  1.00  1.00           C  
+ATOM     77  N7    G A   4       3.516  -3.480   1.579  1.00  1.00           N  
+ATOM     78  C5    G A   4       4.351  -2.483   1.079  1.00  1.00           C  
+ATOM     79  C6    G A   4       4.033  -1.195   0.574  1.00  1.00           C  
+ATOM     80  O6    G A   4       2.932  -0.661   0.462  1.00  1.00           O  
+ATOM     81  N1    G A   4       5.185  -0.505   0.172  1.00  1.00           N  
+ATOM     82  C2    G A   4       6.474  -0.995   0.248  1.00  1.00           C  
+ATOM     83  N2    G A   4       7.438  -0.180  -0.188  1.00  1.00           N  
+ATOM     84  N3    G A   4       6.771  -2.203   0.722  1.00  1.00           N  
+ATOM     85  C4    G A   4       5.664  -2.886   1.117  1.00  1.00           C