RNA 3D Hub //

8EUB Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8EUB_0011/A1/38:45No text annotation
geometric
HL_4V9F_006
HL_48677.1
HL_8EUB_0031/A1/90:96No text annotation
homologous
HL_8C3A_003
NA
HL_8EUB_0041/A1/132:136No text annotation
homologous
HL_8C3A_004
NA
HL_8EUB_0051/A1/194:201T-loop with 2 stacked bulged bases
homologous
HL_8C3A_005
NA
HL_8EUB_0061/A1/208:212No text annotation
homologous
HL_8C3A_006
NA
HL_8EUB_0071/A1/216:224T-loop with unstacked turn
homologous
HL_8C3A_007
NA
HL_8EUB_0081/A1/278:287No text annotation
homologous
HL_8C3A_008
NA
HL_8EUB_0101/A1/357:362GNRA
homologous
HL_5TBW_010
NA
HL_8EUB_0111/A1/382:387GNRA
homologous
HL_8C3A_011
NA
HL_8EUB_1211/A1/640:649T-loop with 2 stacked bulged bases
homologous
HL_8C3A_014
NA
HL_8EUB_0161/A1/707:712GNRA
homologous
HL_8C3A_016
NA
HL_8EUB_0191/A1/844:849GNRA
homologous
HL_8C3A_019
NA
HL_8EUB_1221/A1/876:885No text annotation
homologous
HL_8C3A_020
NA
HL_8EUB_0211/A1/910:918No text annotation
homologous
HL_8C3A_021
NA
HL_8EUB_0221/A1/958:963Externally structured
homologous
HL_8C3A_022
NA
HL_8EUB_0251/A1/1126:1132GNRA
homologous
HL_8C3A_025
NA
HL_8EUB_0261/A1/1148:1155No text annotation
homologous
HL_8C3A_026
NA
HL_8EUB_0301/A1/1403:1408GNRA
homologous
HL_5TBW_030
NA
HL_8EUB_0311/A1/1462:1470T-loop with 2 stacked bulged bases
homologous
HL_8C3A_031
NA
HL_8EUB_0321/A1/1506:1512Pseudoknot geometry with 3' bulge
homologous
HL_8C3A_032
NA
HL_8EUB_0331/A1/1544:1549GNRA variation
homologous
HL_8C3A_033
NA
HL_8EUB_1231/A1/1562:1577No text annotation
HL_8EUB_0351/A1/1599:1608No text annotation
homologous
HL_5TBW_035
NA
HL_8EUB_0361/A1/1634:1639GNRA
homologous
HL_8C3A_036
NA
HL_8EUB_0371/A1/1680:1688No text annotation
homologous
HL_8C3A_037
NA
HL_8EUB_0381/A1/1719:1725No text annotation
homologous
HL_5TBW_038
NA
HL_8EUB_0391/A1/1759:1766No text annotation
homologous
HL_8C3A_039
NA
HL_8EUB_0401/A1/1792:1796Mini UNCG
homologous
HL_5TBW_040
NA
HL_8EUB_0411/A1/1844:1851No text annotation
homologous
HL_8C3A_041
NA
HL_8EUB_0421/A1/1862:1868GNRA
homologous
HL_5TBW_042
NA
HL_8EUB_0431/A1/1923:1928UNCG
geometric
HL_5TBW_043
NA
HL_8EUB_0451/A1/2110:2114No text annotation
homologous
HL_8C3A_045
NA
HL_8EUB_0461/A1/2135:2145No text annotation
homologous
HL_5TBW_046
NA
HL_8EUB_0471/A1/2164:2170GNRA
homologous
HL_8C3A_047
NA
HL_8EUB_0481/A1/2219:2226No text annotation
geometric
HL_4WF9_041
NA
HL_8EUB_0501/A1/2292:2300No text annotation
homologous
HL_8C3A_050
NA
HL_8EUB_0511/A1/2369:2378No text annotation
homologous
HL_8C3A_051
NA
HL_8EUB_0541/A1/2568:2573No text annotation
HL_8EUB_0551/A1/2616:2624No text annotation
homologous
HL_8C3A_055
NA
HL_8EUB_0561/A1/2633:2645No text annotation
homologous
HL_5TBW_055
NA
HL_8EUB_0581/A1/2693:2700Pseudoknot geometry
homologous
HL_8C3A_058
NA
HL_8EUB_1251/A1/2724:2732No text annotation
homologous
HL_8C3A_059
NA
HL_8EUB_0611/A1/2776:2784Pseudoknot geometry
homologous
HL_8C3A_061
NA
HL_8EUB_0621/A1/2840:2848No text annotation
homologous
HL_5TBW_061
NA
HL_8EUB_0631/A1/2897:2904No text annotation
homologous
HL_5TBW_062
NA
HL_8EUB_0641/A1/2920:2926No text annotation
geometric
HL_5TBW_063
NA
HL_8EUB_0651/A1/2963:2968GNRA
homologous
HL_8C3A_065
NA
HL_8EUB_0661/A1/3025:3030GNRA
homologous
HL_8C3A_066
NA
HL_8EUB_0671/A1/3068:3073Ribsomal LSU H95
homologous
HL_8C3A_067
NA
HL_8EUB_0681/A1/3110:3124No text annotation
homologous
HL_8C3A_068
NA
HL_8EUB_0701/A1/3240:3247No text annotation
homologous
HL_8P9A_180
HL_31089.1
HL_8EUB_0711/A1/3303:3311No text annotation
geometric
HL_5TBW_070
NA
HL_8EUB_0721/A1/3350:3353Mini UNCG
geometric
HL_5F9R_002
HL_90436.1
HL_8EUB_1271/A4/47:56No text annotation
homologous
HL_8P9A_186
HL_17803.1
HL_8EUB_0751/A4/69:89No text annotation
homologous
HL_8P9A_187
HL_68571.1
HL_8EUB_0761/A4/108:114No text annotation
homologous
HL_5TBW_075
NA
HL_8EUB_0781/B5/7:17No text annotation
homologous
HL_4V88_186
NA
HL_8EUB_0791/B5/70:81No text annotation
geometric
HL_4V9F_011
HL_75660.6
HL_8EUB_0831/B5/243:250T-loop with 1 bulged base
homologous
HL_4V88_191
NA
HL_8EUB_0851/B5/330:338GNRA related
homologous
HL_4V88_193
NA
HL_8EUB_0861/B5/368:373No text annotation
homologous
HL_4V88_194
NA
HL_8EUB_0871/B5/393:404No text annotation
homologous
HL_4V88_195
NA
HL_8EUB_0911/B5/520:532No text annotation
geometric
HL_4V88_199
NA
HL_8EUB_0921/B5/569:574GNRA variation
homologous
HL_4V88_200
NA
HL_8EUB_0981/B5/900:909No text annotation
homologous
HL_4V88_206
NA
HL_8EUB_0991/B5/937:942GNRA
homologous
HL_4V88_207
NA
HL_8EUB_1291/B5/997:1007No text annotation
homologous
HL_8C3A_213
NA
HL_8EUB_1021/B5/1084:1089GNRA
homologous
HL_4V88_210
NA
HL_8EUB_1301/B5/1121:1126GNRA
homologous
HL_8C3A_216
NA
HL_8EUB_1061/B5/1296:1301GNRA
homologous
HL_4V88_214
NA
HL_8EUB_1141/B5/1778:1783GNRA variation
homologous
HL_4V88_222
NA

Problematic loops

#loop idProblemSequence
HL_8EUB_002No text annotation
HL_8EUB_009Pseudoknot geometry
HL_8EUB_120No text annotation
HL_8EUB_012No text annotation
HL_8EUB_013GNRA
HL_8EUB_014No text annotation
HL_8EUB_015No text annotation
HL_8EUB_017GNRA
HL_8EUB_018No text annotation
HL_8EUB_020No text annotation
HL_8EUB_023No text annotation
HL_8EUB_024T-loop related
HL_8EUB_027No text annotation
HL_8EUB_028GNRA wlth tandem sheared
HL_8EUB_029No text annotation
HL_8EUB_034No text annotation
HL_8EUB_044No text annotation
HL_8EUB_049No text annotation
HL_8EUB_124No text annotation
HL_8EUB_052No text annotation
HL_8EUB_053No text annotation
HL_8EUB_057No text annotation
HL_8EUB_059No text annotation
HL_8EUB_060GNRA
HL_8EUB_069No text annotation
HL_8EUB_126No text annotation
HL_8EUB_073No text annotation
HL_8EUB_074GNRA
HL_8EUB_077No text annotation
HL_8EUB_080GNRA related
HL_8EUB_081No text annotation
HL_8EUB_082No text annotation
HL_8EUB_084Mini UNCG
HL_8EUB_088No text annotation
HL_8EUB_128UNCG
HL_8EUB_089No text annotation
HL_8EUB_090No text annotation
HL_8EUB_093No text annotation
HL_8EUB_094Externally structured
HL_8EUB_095No text annotation
HL_8EUB_096No text annotation
HL_8EUB_097Pseudoknot geometry
HL_8EUB_132No text annotation
HL_8EUB_100tRNA D-loop
HL_8EUB_101No text annotation
HL_8EUB_103GNRA with extra cWW
HL_8EUB_104No text annotation
HL_8EUB_105Anticodon loop related
HL_8EUB_107No text annotation
HL_8EUB_131No text annotation
HL_8EUB_108Mini UNCG
HL_8EUB_109GNRA
HL_8EUB_110GNRA
HL_8EUB_111No text annotation
HL_8EUB_112No text annotation
HL_8EUB_113No text annotation
HL_8EUB_115Externally structured
HL_8EUB_116No text annotation
HL_8EUB_117No text annotation
HL_8EUB_118Anticodon loop related
HL_8EUB_119No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8EUB_0021/A1/7:8,
1/A4/150:152		Single bulged C
homologous
IL_8C3A_002
NA
IL_8EUB_0031/A1/13:15,
1/A4/144:145		Single bulged U
homologous
IL_8C3A_003
NA
IL_8EUB_0041/A1/27:28,
1/A1/56:58		No text annotation
homologous
IL_8C3A_004
NA
IL_8EUB_0051/A1/31:38,
1/A1/45:53		tSH-tHW-tHH-tHS
homologous
IL_5TBW_005
NA
IL_8EUB_0061/A1/82:89,
1/A1/97:103		No text annotation
homologous
IL_8C3A_006
NA
IL_8EUB_0081/A1/125:127,
1/A1/141:143		Isolated non-canonical cWW pair
homologous
IL_8C3A_008
NA
IL_8EUB_2571/A1/174:177,
1/A1/239:243		No text annotation
IL_8EUB_0141/A1/189:191,
1/A1/204:205		Single bulged U
homologous
IL_8C3A_013
NA
IL_8EUB_0151/A1/337:339,
1/A4/25:26		Single bulged A
homologous
IL_5TBW_013
NA
IL_8EUB_0161/A1/376:379,
1/A1/390:403		No text annotation
homologous
IL_5TBW_014
NA
IL_8EUB_0171/A1/404:410,
1/A4/13:19		Triple sheared with non-canonical cWW
homologous
IL_5TBW_015
NA
IL_8EUB_0181/A1/417:419,
1/A4/4:6		Isolated non-canonical cWW pair
geometric
IL_4LFB_010
IL_01003.1
IL_8EUB_0191/A1/429:431,
1/A1/628:630		Isolated non-canonical cWW pair
homologous
IL_5TBW_016
NA
IL_8EUB_0241/A1/668:670,
1/A1/792:794		Isolated non-canonical cWW pair
homologous
IL_8C3A_023
NA
IL_8EUB_0271/A1/752:753,
1/A1/779:781		Single bulged A
homologous
IL_8C3A_026
NA
IL_8EUB_0281/A1/755:756,
1/A1/775:777		Single bulged U
homologous
IL_5TBW_025
NA
IL_8EUB_2581/A1/803:805,
1/A1/938:940		Isolated non-canonical cWW pair
homologous
IL_8C3A_029
NA
IL_8EUB_2591/A1/805:809,
1/A1/931:938		No text annotation
homologous
IL_8C3A_030
NA
IL_8EUB_0321/A1/828:829,
1/A1/895:897		Single bulged A
homologous
IL_8C3A_031
NA
IL_8EUB_0331/A1/833:834,
1/A1/859:861		Single bulged G
homologous
IL_8C3A_032
NA
IL_8EUB_0341/A1/834:838,
1/A1/855:859		Triple sheared
geometric
IL_5J7L_263
NA
IL_8EUB_0351/A1/869:872,
1/A1/888:890		Major groove platform with extra cWW
homologous
IL_5TBW_031
NA
IL_8EUB_0361/A1/873:875,
1/A1/886:887		Single bulged U
geometric
IL_5TBW_032
NA
IL_8EUB_0371/A1/907:909,
1/A1/919:923		Multiple bulged bases
homologous
IL_5TBW_033
NA
IL_8EUB_0381/A1/969:970,
1/A1/1111:1113		No text annotation
homologous
IL_8C3A_038
NA
IL_8EUB_0391/A1/977:982,
1/A1/1101:1104		Kink-turn related
homologous
IL_8C3A_039
NA
IL_8EUB_0431/A1/999:1004,
1/A1/1046:1049		C-loop with bulged stacked A's
homologous
IL_8C3A_043
NA
IL_8EUB_0441/A1/1006:1009,
1/A1/1041:1044		Tandem non-canonical cWW pairs
geometric
IL_5TBW_041
NA
IL_8EUB_0451/A1/1009:1011,
1/A1/1039:1041		Isolated non-canonical cWW pair
homologous
IL_8C3A_045
NA
IL_8EUB_0481/A1/1120:1122,
1/A1/1136:1138		Isolated non-canonical cWW pair
homologous
IL_8C3A_049
NA
IL_8EUB_0501/A1/1167:1171,
1/A1/1328:1332		UAA/GAN
homologous
IL_8C3A_051
NA
IL_8EUB_0511/A1/1173:1180,
1/A1/1325:1326		SSU/LSU pseudoknot
homologous
IL_5TBW_049
NA
IL_8EUB_0521/A1/1180:1182,
1/A1/1324:1325		Single bulged U
geometric
IL_5TBW_050
NA
IL_8EUB_0531/A1/1187:1194,
1/A1/1314:1319		No text annotation
homologous
IL_8C3A_054
NA
IL_8EUB_0541/A1/1194:1205,
1/A1/1299:1314		No text annotation
geometric
IL_5TBW_052
NA
IL_8EUB_0551/A1/1207:1209,
1/A1/1296:1297		Single bulged U
homologous
IL_8C3A_056
NA
IL_8EUB_0611/A1/1376:1378,
1/A1/1428:1431		No text annotation
homologous
IL_8C3A_061
NA
IL_8EUB_0621/A1/1385:1387,
1/A1/1420:1421		Single bulged A
homologous
IL_5TBW_058
NA
IL_8EUB_0631/A1/1388:1395,
1/A1/1415:1419		Kink-turn
homologous
IL_8C3A_063
NA
IL_8EUB_0641/A1/1398:1400,
1/A1/1411:1412		Single bulged A
homologous
IL_5TBW_060
NA
IL_8EUB_2621/A1/1444:1450,
1/A1/2354:2359		7x6 Sarcin-Ricin; G-bulge
homologous
IL_8P9A_289
IL_02666.1
IL_8EUB_2631/A1/1501:1505,
1/A1/1513:1515		C-loop
homologous
IL_8P9A_290
IL_63596.12
IL_8EUB_0671/A1/1532:1536,
1/A1/1585:1590		UAA/GAN
homologous
IL_8C3A_067
NA
IL_8EUB_0681/A1/1562:1566,
1/A1/1572:1577		No text annotation
IL_8EUB_0691/A1/1618:1621,
1/A1/1824:1826		No text annotation
homologous
IL_8C3A_070
NA
IL_8EUB_0701/A1/1623:1624,
1/A1/1820:1822		Single bulged U
geometric
IL_2R8S_004
IL_97561.1
IL_8EUB_0711/A1/1625:1631,
1/A1/1811:1819		No text annotation
IL_8EUB_0721/A1/1645:1649,
1/A1/1806:1810		Triple sheared
homologous
IL_8C3A_073
NA
IL_8EUB_0731/A1/1661:1663,
1/A1/1786:1788		Isolated non-canonical cWW pair
homologous
IL_8C3A_074
NA
IL_8EUB_0741/A1/1669:1670,
1/A1/1778:1780		Single bulged C
homologous
IL_5TBW_069
NA
IL_8EUB_0751/A1/1670:1671,
1/A1/1776:1778		Single stack bend
geometric
IL_5TBW_070
NA
IL_8EUB_0761/A1/1702:1707,
1/A1/1737:1743		No text annotation
homologous
IL_5TBW_072
NA
IL_8EUB_0771/A1/1711:1717,
1/A1/1727:1733		Kink-turn
homologous
IL_5TBW_073
NA
IL_8EUB_0781/A1/1883:1889,
1/A1/2346:2349		No text annotation
homologous
IL_8C3A_080
NA
IL_8EUB_0791/A1/1895:1897,
1/A1/2338:2340		Isolated tWW turn
geometric
IL_4WF9_063
IL_10432.1
IL_8EUB_2641/A1/1898:1901,
1/A1/2336:2337		Major groove platform; stack outside cWW
geometric
IL_5TBW_076
NA
IL_8EUB_2651/A1/1898:1906,
1/A1/2333:2337		No text annotation
homologous
IL_8P9A_305
IL_80252.1
IL_8EUB_0811/A1/1901:1906,
1/A1/2333:2336		No text annotation
homologous
IL_8C3A_083
NA
IL_8EUB_0821/A1/1918:1923,
1/A1/1928:1934		No text annotation
homologous
IL_8C3A_084
NA
IL_8EUB_0831/A1/1940:1942,
1/A1/2106:2108		Isolated non-canonical cWW pair
homologous
IL_8C3A_085
NA
IL_8EUB_0841/A1/1947:1948,
1/A1/2098:2101		No text annotation
homologous
IL_8C3A_086
NA
IL_8EUB_0861/A1/2128:2129,
1/A1/2323:2325		Single bulged A
homologous
IL_8C3A_087
NA
IL_8EUB_0871/A1/2156:2161,
1/A1/2173:2180		Kink-turn related
homologous
IL_5TBW_083
NA
IL_8EUB_0881/A1/2196:2199,
1/A1/2245:2246		No text annotation
homologous
IL_8C3A_089
NA
IL_8EUB_0891/A1/2200:2201,
1/A1/2241:2244		Multiple bulged bases
homologous
IL_8C3A_090
NA
IL_8EUB_0901/A1/2204:2206,
1/A1/2237:2238		Single stack bend
homologous
IL_8C3A_091
NA
IL_8EUB_0911/A1/2206:2210,
1/A1/2235:2237		No text annotation
homologous
IL_8C3A_092
NA
IL_8EUB_0921/A1/2211:2217,
1/A1/2228:2234		No text annotation
homologous
IL_8C3A_093
NA
IL_8EUB_0931/A1/2276:2277,
1/A1/2307:2310		Bulged stacked bases
geometric
IL_5TBW_089
NA
IL_8EUB_2661/A1/2277:2288,
1/A1/2304:2307		No text annotation
homologous
IL_8C3A_095
NA
IL_8EUB_0951/A1/2391:2394,
1/A1/2986:2988		Major groove platform with extra pair
homologous
IL_5TBW_091
NA
IL_8EUB_0961/A1/2396:2398,
1/A1/2981:2984		No text annotation
homologous
IL_8C3A_097
NA
IL_8EUB_0971/A1/2409:2411,
1/A1/2811:2812		Single bulged U
homologous
IL_8C3A_098
NA
IL_8EUB_0981/A1/2412:2413,
1/A1/2807:2810		Minor groove platform
homologous
IL_8C3A_099
NA
IL_8EUB_1001/A1/2423:2425,
1/A1/2604:2607		No text annotation
homologous
IL_8C3A_100
NA
IL_8EUB_1071/A1/2520:2526,
1/A1/2584:2587		No text annotation
homologous
IL_8C3A_106
NA
IL_8EUB_1081/A1/2614:2615,
1/A1/2625:2627		Single bulged A
homologous
IL_5TBW_098
NA
IL_8EUB_1101/A1/2718:2721,
1/A1/2735:2738		Tandem non-canonical cWW pairs
homologous
IL_5TBW_100
NA
IL_8EUB_1131/A1/2823:2824,
1/A1/2865:2867		Major groove platform
homologous
IL_5TBW_102
NA
IL_8EUB_1141/A1/2824:2826,
1/A1/2863:2865		Isolated non-canonical cWW pair
geometric
IL_5TBW_103
NA
IL_8EUB_1151/A1/2826:2828,
1/A1/2862:2863		Major groove platform
homologous
IL_5TBW_104
NA
IL_8EUB_1161/A1/2828:2830,
1/A1/2858:2862		Major groove minor groove platform with extra cWW
geometric
IL_5TBW_105
NA
IL_8EUB_1171/A1/2835:2839,
1/A1/2849:2853		No text annotation
homologous
IL_8C3A_114
NA
IL_8EUB_1181/A1/2876:2877,
1/A1/2949:2951		Major groove platform
geometric
IL_4V9F_086
IL_46637.1
IL_8EUB_1201/A1/2879:2881,
1/A1/2943:2947		No text annotation
homologous
IL_8C3A_116
NA
IL_8EUB_1211/A1/2881:2882,
1/A1/2940:2943		Multiple bulged bases
geometric
IL_4V9F_088
IL_44609.1
IL_8EUB_1221/A1/2889:2891,
1/A1/2912:2914		Isolated non-canonical cWW pair
homologous
IL_8C3A_118
NA
IL_8EUB_2681/A1/2889:2892,
1/A1/2909:2914		No text annotation
homologous
IL_8P9A_338
IL_07469.3
IL_8EUB_1231/A1/2891:2892,
1/A1/2909:2912		Major groove platform with intercalation
geometric
IL_5TBW_111
NA
IL_8EUB_1241/A1/2918:2920,
1/A1/2926:2928		Isolated non-canonical cWW pair
homologous
IL_8C3A_120
NA
IL_8EUB_1261/A1/2960:2961,
1/A1/2970:2972		Single bulged A
geometric
IL_1I9X_002
NA
IL_8EUB_1271/A1/3004:3007,
1/A1/3139:3144		Double sheared
homologous
IL_8C3A_123
NA
IL_8EUB_1281/A1/3012:3014,
1/A1/3040:3042		Isolated non-canonical cWW pair
homologous
IL_8C3A_124
NA
IL_8EUB_1291/A1/3016:3018,
1/A1/3036:3038		Isolated non-canonical cWW pair
geometric
IL_4LFB_061
NA
IL_8EUB_1301/A1/3018:3025,
1/A1/3030:3036		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5TBW_116
NA
IL_8EUB_1311/A1/3047:3051,
1/A1/3091:3094		Major groove minor groove platform with tHH
homologous
IL_8C3A_126
NA
IL_8EUB_1321/A1/3054:3059,
1/A1/3084:3088		UAA/GAN related
homologous
IL_5TBW_118
NA
IL_8EUB_1331/A1/3063:3064,
1/A1/3077:3080		No text annotation
homologous
IL_8C3A_128
NA
IL_8EUB_1341/A1/3103:3107,
1/A1/3127:3131		UAA/GAN
homologous
IL_8C3A_129
NA
IL_8EUB_1351/A1/3164:3166,
1/A1/3284:3286		Isolated non-canonical cWW pair
homologous
IL_8C3A_130
NA
IL_8EUB_1361/A1/3168:3170,
1/A1/3280:3282		Isolated non-canonical cWW pair
homologous
IL_5TBW_122
NA
IL_8EUB_1371/A1/3177:3179,
1/A1/3210:3211		Single bulged A
homologous
IL_5TBW_123
NA
IL_8EUB_1381/A1/3179:3188,
1/A1/3204:3210		No text annotation
geometric
IL_5TBW_124
NA
IL_8EUB_1401/A1/3225:3229,
1/A1/3258:3260		No text annotation
homologous
IL_8C3A_133
NA
IL_8EUB_1411/A1/3233:3235,
1/A1/3252:3254		Isolated non-canonical cWW pair
geometric
IL_3D0U_006
IL_01003.1
IL_8EUB_1421/A1/3235:3238,
1/A1/3249:3252		Tandem non-canonical cWW pairs
homologous
IL_5TBW_128
NA
IL_8EUB_1431/A1/3300:3303,
1/A1/3311:3314		Tandem non-canonical cWW pairs
homologous
IL_5TBW_129
NA
IL_8EUB_1441/A1/3318:3320,
1/A1/3387:3388		Single bulged U
homologous
IL_8C3A_136
NA
IL_8EUB_1451/A1/3324:3325,
1/A1/3381:3383		Single bulged U
homologous
IL_5TBW_131
NA
IL_8EUB_1461/A1/3328:3330,
1/A1/3373:3378		Isolated non-canonical cWW pair
homologous
IL_5TBW_132
NA
IL_8EUB_1471/A1/3332:3337,
1/A1/3367:3371		No text annotation
homologous
IL_8C3A_139
NA
IL_8EUB_1481/A1/3340:3342,
1/A1/3363:3364		Single bulged U
homologous
IL_8C3A_140
NA
IL_8EUB_1491/A1/3342:3345,
1/A1/3360:3363		Double sheared; A in syn
homologous
IL_8C3A_141
NA
IL_8EUB_1501/A1/3349:3350,
1/A1/3353:3356		Multiple bulged bases
homologous
IL_8C3A_142
NA
IL_8EUB_1561/A3/72:80,
1/A3/100:106		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5TBW_377
NA
IL_8EUB_1571/A3/84:87,
1/A3/94:96		Isolated non-canonical cWW pair
homologous
IL_5TBW_378
NA
IL_8EUB_1581/A4/44:64,
1/A4/96:100		No text annotation
geometric
IL_5TBW_144
NA
IL_8EUB_2691/A4/64:66,
1/A4/93:96		Isolated non-canonical cWW with bulges
homologous
IL_8P9A_371
IL_68118.1
IL_8EUB_1601/A4/68:69,
1/A4/89:91		Single bulged U
geometric
IL_5TBW_146
NA
IL_8EUB_1611/B5/24:26,
1/B5/600:601		Single bulged C
homologous
IL_4V88_384
NA
IL_8EUB_1641/B5/37:41,
1/B5/466:471		Triple sheared related
homologous
IL_4V88_386
NA
IL_8EUB_1651/B5/42:48,
1/B5/431:433		No text annotation
homologous
IL_4V88_387
NA
IL_8EUB_1681/B5/64:69,
1/B5/82:86		No text annotation
homologous
IL_4V88_390
NA
IL_8EUB_1691/B5/109:112,
1/B5/302:305		Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA
IL_8EUB_1701/B5/113:116,
1/B5/300:301		Multiple bulged bases
homologous
IL_4V88_392
NA
IL_8EUB_1711/B5/117:122,
1/B5/295:299		No text annotation
homologous
IL_4V88_393
NA
IL_8EUB_1801/B5/311:316,
1/B5/348:355		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_8EUB_1811/B5/318:323,
1/B5/345:346		No text annotation
geometric
IL_5Y58_001
IL_45649.1
IL_8EUB_1821/B5/363:365,
1/B5/376:381		No text annotation
homologous
IL_4V88_404
NA
IL_8EUB_2721/B5/411:413,
1/B5/420:422		Isolated non-canonical cWW pair
homologous
IL_8C3A_414
NA
IL_8EUB_1861/B5/447:448,
1/B5/458:460		Single bulged G
geometric
IL_5J7L_019
NA
IL_8EUB_1911/B5/550:557,
1/B5/587:588		SSU/LSU pseudoknot
geometric
IL_4V88_413
NA
IL_8EUB_2741/B5/562:568,
1/B5/575:583		No text annotation
homologous
IL_8P9A_404
IL_52042.1
IL_8EUB_1941/B5/616:622,
1/B5/1104:1105		No text annotation
homologous
IL_4V88_416
NA
IL_8EUB_1951/B5/624:626,
1/B5/973:975		Isolated non-canonical cWW pair
homologous
IL_4V88_417
NA
IL_8EUB_1961/B5/627:631,
1/B5/968:972		tSH-tHW-tHS
homologous
IL_4V88_418
NA
IL_8EUB_1981/B5/746:747,
1/B5/802:805		Major groove minor groove platform; mini C-loop
homologous
IL_4V88_423
NA
IL_8EUB_1991/B5/748:750,
1/B5/799:801		Isolated non-canonical cWW pair
homologous
IL_4V88_424
NA
IL_8EUB_2041/B5/865:866,
1/B5/962:965		Major groove platform; stack outside cWW
homologous
IL_4V88_428
NA
IL_8EUB_2771/B5/868:870,
1/B5/957:960		Isolated cWH basepair
homologous
IL_8C3A_510
NA
IL_8EUB_2061/B5/871:874,
1/B5/953:956		Tandem non-canonical cWW pairs
geometric
IL_4V88_430
NA
IL_8EUB_2071/B5/874:878,
1/B5/950:953		Tandem non-canonical cWW pairs
homologous
IL_4V88_431
NA
IL_8EUB_2081/B5/885:888,
1/B5/924:927		Tandem non-canonical cWW pairs
homologous
IL_4V88_432
NA
IL_8EUB_2091/B5/893:899,
1/B5/910:919		Kink-turn related
homologous
IL_8C3A_440
NA
IL_8EUB_2101/B5/985:990,
1/B5/1014:1016		Other IL
homologous
IL_4V88_435
NA
IL_8EUB_2111/B5/990:994,
1/B5/1010:1014		tSH-tHW-tHS
geometric
IL_4V88_436
NA
IL_8EUB_2121/B5/1034:1036,
1/B5/1095:1101		No text annotation
homologous
IL_4V88_437
NA
IL_8EUB_2131/B5/1041:1044,
1/B5/1074:1077		Tandem non-canonical cWW pairs
homologous
IL_4V88_438
NA
IL_8EUB_2141/B5/1051:1053,
1/B5/1066:1067		Single bulged U
homologous
IL_4V88_439
NA
IL_8EUB_2151/B5/1111:1118,
1/B5/1129:1134		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4V88_440
NA
IL_8EUB_2161/B5/1146:1147,
1/B5/1630:1632		Single bulged A
homologous
IL_4V88_441
NA
IL_8EUB_2171/B5/1149:1151,
1/B5/1627:1628		Single bulged G
homologous
IL_4V88_442
NA
IL_8EUB_2281/B5/1290:1292,
1/B5/1323:1325		Isolated cWH basepair
homologous
IL_4V88_453
NA
IL_8EUB_2381/B5/1636:1638,
1/B5/1764:1767		No text annotation
homologous
IL_4V88_463
NA
IL_8EUB_2391/B5/1638:1641,
1/B5/1760:1764		No text annotation
geometric
IL_4V88_464
NA
IL_8EUB_2401/B5/1642:1644,
1/B5/1757:1759		Isolated non-canonical cWW pair
geometric
IL_4V88_465
NA
IL_8EUB_2411/B5/1644:1647,
1/B5/1753:1757		Tandem non-canonical cWW pairs
geometric
IL_6CZR_141
NA
IL_8EUB_2421/B5/1650:1652,
1/B5/1748:1750		Isolated non-canonical cWW pair
homologous
IL_4V88_467
NA
IL_8EUB_2431/B5/1653:1656,
1/B5/1744:1747		Double sheared
homologous
IL_4V88_468
NA
IL_8EUB_2441/B5/1656:1658,
1/B5/1743:1744		Single bulged U
geometric
IL_4V88_469
NA
IL_8EUB_2451/B5/1665:1667,
1/B5/1734:1736		Isolated non-canonical cWW pair
homologous
IL_4V88_470
NA
IL_8EUB_2461/B5/1669:1672,
1/B5/1729:1732		Double sheared
geometric
IL_4V88_471
NA
IL_8EUB_2471/B5/1672:1674,
1/B5/1727:1729		Isolated non-canonical cWW pair
homologous
IL_4V88_472
NA
IL_8EUB_2481/B5/1675:1678,
1/B5/1723:1726		Tandem non-canonical cWW pairs
geometric
IL_4V88_473
NA
IL_8EUB_2491/B5/1678:1682,
1/B5/1719:1723		Triple sheared
homologous
IL_4V88_474
NA

Problematic loops

#loop idProblemSequence
IL_8EUB_001No text annotation
IL_8EUB_007No text annotation
IL_8EUB_009Single stack bend
IL_8EUB_010No text annotation
IL_8EUB_011Isolated cWH basepair
IL_8EUB_012Isolated cWH basepair
IL_8EUB_013No text annotation
IL_8EUB_020No text annotation
IL_8EUB_021Single bulged A
IL_8EUB_022No text annotation
IL_8EUB_023No text annotation
IL_8EUB_025No text annotation
IL_8EUB_026No text annotation
IL_8EUB_029No text annotation
IL_8EUB_030No text annotation
IL_8EUB_031Isolated non-canonical cWW pair
IL_8EUB_040Single bulged G
IL_8EUB_0417x7 Sarcin-Ricin with intercalated A; G-bulge
IL_8EUB_042Minor groove platform
IL_8EUB_046Isolated non-canonical cWW pair
IL_8EUB_047Single bulged A
IL_8EUB_260No text annotation
IL_8EUB_049Tandem non-canonical cWW pairs
IL_8EUB_056Kink-turn
IL_8EUB_057Isolated cWH basepair
IL_8EUB_058Single stack bend
IL_8EUB_261No text annotation
IL_8EUB_059No text annotation
IL_8EUB_060Major groove platform with extra cWW
IL_8EUB_0658x7 Sarcin-Ricin with CC bifurcated pair; G-bulge
IL_8EUB_066No text annotation
IL_8EUB_080Major groove platform with extra pair
IL_8EUB_085Isolated non-canonical cWW pair
IL_8EUB_094No text annotation
IL_8EUB_099Isolated non-canonical cWW pair
IL_8EUB_101Isolated non-canonical cWW pair
IL_8EUB_102No text annotation
IL_8EUB_103No text annotation
IL_8EUB_267No text annotation
IL_8EUB_104No text annotation
IL_8EUB_105No text annotation
IL_8EUB_106No text annotation
IL_8EUB_109Isolated tHS basepair with bulges
IL_8EUB_111Isolated non-canonical cWW pair
IL_8EUB_112Single stack bend
IL_8EUB_119Isolated non-canonical cWW pair
IL_8EUB_125No text annotation
IL_8EUB_139Single bulged U
IL_8EUB_151Single bulged A
IL_8EUB_152Minor groove platform related
IL_8EUB_153Minor groove platform
IL_8EUB_154Single stack bend
IL_8EUB_155Symmetric double minor groove platform
IL_8EUB_159Tandem non-canonical cWW pairs
IL_8EUB_162Isolated non-canonical cWW pair
IL_8EUB_163Isolated non-canonical cWW pair
IL_8EUB_166Minor groove platform
IL_8EUB_167No text annotation
IL_8EUB_172tWH-tWH-tHW-tHW
IL_8EUB_173Isolated cWH basepair
IL_8EUB_270No text annotation
IL_8EUB_174Major groove platform with extra cWW
IL_8EUB_175Isolated non-canonical cWW pair
IL_8EUB_176No text annotation
IL_8EUB_177Single bulged A
IL_8EUB_271No text annotation
IL_8EUB_178No text annotation
IL_8EUB_179Single bulged U
IL_8EUB_183Isolated cWH basepair
IL_8EUB_184Single bulged U
IL_8EUB_185C-loop
IL_8EUB_187No text annotation
IL_8EUB_188No text annotation
IL_8EUB_189Minor groove platform with extra cWW
IL_8EUB_273Minor groove platform
IL_8EUB_190Minor groove platform
IL_8EUB_192Single bulged U
IL_8EUB_193No text annotation
IL_8EUB_197Isolated non-canonical cWW pair
IL_8EUB_275No text annotation
IL_8EUB_200No text annotation
IL_8EUB_201No text annotation
IL_8EUB_276No text annotation
IL_8EUB_202Isolated non-canonical cWW pair
IL_8EUB_203Tandem non-canonical cWW pairs
IL_8EUB_205Tandem non-canonical cWW pairs
IL_8EUB_218C-loop
IL_8EUB_219Isolated non-canonical cWW pair
IL_8EUB_220Minor groove platform
IL_8EUB_221Isolated non-canonical cWW pair
IL_8EUB_222No text annotation
IL_8EUB_284No text annotation
IL_8EUB_278No text annotation
IL_8EUB_223No text annotation
IL_8EUB_279Single bulged U
IL_8EUB_224Isolated non-canonical cWW pair
IL_8EUB_225Isolated cWS basepair
IL_8EUB_280No text annotation
IL_8EUB_226Minor groove platform with extra cWW
IL_8EUB_227Isolated non-canonical cWW pair
IL_8EUB_281Single bulged A
IL_8EUB_229Minor groove platform
IL_8EUB_230Isolated non-canonical cWW pair
IL_8EUB_231No text annotation
IL_8EUB_232Decoding loop related
IL_8EUB_233No text annotation
IL_8EUB_234No text annotation
IL_8EUB_235180 degree turn
IL_8EUB_236Tandem non-canonical cWW pairs
IL_8EUB_237No text annotation
IL_8EUB_285Single stack bend
IL_8EUB_250No text annotation
IL_8EUB_251No text annotation
IL_8EUB_252No text annotation
IL_8EUB_253Isolated non-canonical cWW pair
IL_8EUB_286No text annotation
IL_8EUB_282No text annotation
IL_8EUB_254No text annotation
IL_8EUB_283No text annotation
IL_8EUB_287No text annotation
IL_8EUB_255Minor groove platform
IL_8EUB_256Single bulged A

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8EUB_0011/A1/113:123,
1/A1/149:158,
1/A1/263:267		No text annotation
homologous
J3_8C3A_001
NA
J3_8EUB_0241/A1/113:124,
1/A1/144:158,
1/A1/263:267		No text annotation
J3_8EUB_0251/A1/185:189,
1/A1/205:214,
1/A1/226:231		No text annotation
homologous
J3_8P9A_044
J3_97456.1
J3_8EUB_0261/A1/340:356,
1/A1/363:368,
1/A4/21:24		No text annotation
homologous
J3_8P9A_045
J3_07616.1
J3_8EUB_0271/A1/369:376,
1/A1/403:404,
1/A4/19:20		No text annotation
geometric
J3_5TBW_002
NA
J3_8EUB_0281/A1/369:379,
1/A1/390:404,
1/A4/19:20		No text annotation
homologous
J3_8P9A_047
J3_17917.1
J3_8EUB_0291/A1/502:503,
1/A1/588:597,
1/A1/606:611		No text annotation
homologous
J3_8P9A_048
J3_86133.1
J3_8EUB_0021/A1/814:820,
1/A1/905:907,
1/A1/923:926		No text annotation
homologous
J3_8C3A_003
NA
J3_8EUB_0301/A1/829:831,
1/A1/863:867,
1/A1/892:895		No text annotation
homologous
J3_8C3A_004
NA
J3_8EUB_0051/A1/1479:1485,
1/A1/1857:1859,
1/A1/1871:1874		No text annotation
homologous
J3_8C3A_006
NA
J3_8EUB_0061/A1/1488:1491,
1/A1/1837:1843,
1/A1/1852:1854		No text annotation
homologous
J3_5TBW_009
NA
J3_8EUB_0321/A1/1526:1531,
1/A1/1591:1595,
1/A1/1612:1613		No text annotation
homologous
J3_8C3A_052
NA
J3_8EUB_0331/A1/1537:1542,
1/A1/1551:1561,
1/A1/1578:1584		No text annotation
homologous
J3_8C3A_053
NA
J3_8EUB_0341/A1/1631:1632,
1/A1/1641:1645,
1/A1/1810:1811		No text annotation
homologous
J3_8C3A_054
NA
J3_8EUB_0351/A1/1654:1658,
1/A1/1791:1792,
1/A1/1796:1801		No text annotation
homologous
J3_8P9A_058
J3_08594.1
J3_8EUB_0071/A1/2432:2435,
1/A1/2512:2517,
1/A1/2590:2597		No text annotation
homologous
J3_8C3A_008
NA
J3_8EUB_0081/A1/2529:2532,
1/A1/2547:2563,
1/A1/2578:2581		No text annotation
homologous
J3_8C3A_009
NA
J3_8EUB_0361/A1/2651:2653,
1/A1/2754:2765,
1/A1/2793:2798		No text annotation
homologous
J3_8C3A_056
NA
J3_8EUB_0101/A1/2664:2666,
1/A1/2690:2692,
1/A1/2701:2706		No text annotation
homologous
J3_5TBW_013
NA
J3_8EUB_0111/A1/2886:2889,
1/A1/2914:2916,
1/A1/2930:2936		No text annotation
homologous
J3_8C3A_011
NA
J3_8EUB_0371/A1/3171:3176,
1/A1/3212:3220,
1/A1/3265:3279		No text annotation
homologous
J3_8P9A_064
J3_03190.1
J3_8EUB_0121/A1/3298:3300,
1/A1/3314:3318,
1/A1/3388:3390		No text annotation
homologous
J3_5TBW_015
NA
J3_8EUB_0381/A3/9:14,
1/A3/66:67,
1/A3/111:112		No text annotation
homologous
J3_8P9A_066
J3_26985.1
J3_8EUB_0391/A4/44:45,
1/A4/58:64,
1/A4/96:100		No text annotation
homologous
J3_8P9A_067
J3_01004.1
J3_8EUB_0401/B5/41:42,
1/B5/433:439,
1/B5/464:466		No text annotation
geometric
J3_4V88_078
NA
J3_8EUB_0411/B5/41:48,
1/B5/431:439,
1/B5/464:466		No text annotation
homologous
J3_8P9A_069
J3_63856.1
J3_8EUB_0421/B5/213:228,
1/B5/237:243,
1/B5/250:252		No text annotation
J3_8EUB_0431/B5/633:635,
1/B5/861:865,
1/B5/965:966		No text annotation
geometric
J3_4V88_080
NA
J3_8EUB_0441/B5/633:635,
1/B5/861:866,
1/B5/962:966		No text annotation
homologous
J3_8P9A_072
J3_17385.5
J3_8EUB_0141/B5/881:884,
1/B5/928:936,
1/B5/943:947		No text annotation
homologous
J3_4V88_033
NA
J3_8EUB_0151/B5/1037:1039,
1/B5/1079:1083,
1/B5/1090:1094		No text annotation
homologous
J3_4V88_034
NA
J3_8EUB_0201/B5/1283:1288,
1/B5/1327:1332,
1/B5/1419:1424		No text annotation
homologous
J3_4V88_039
NA
J3_8EUB_0451/B5/1293:1294,
1/B5/1303:1306,
1/B5/1318:1322		No text annotation
homologous
J3_8C3A_085
NA
J4_8EUB_0011/A1/112:113,
1/A1/267:272,
1/A1/293:299,
1/A1/316:319		No text annotation
homologous
J4_8P9A_012
J4_94698.1
J4_8EUB_0021/A1/185:189,
1/A1/205:208,
1/A1/212:214,
1/A1/226:231		No text annotation
homologous
J4_8P9A_013
J4_43318.1
J4_8EUB_0031/A1/1451:1457,
1/A1/1475:1476,
1/A1/1877:1880,
1/A1/2352:2353		No text annotation
homologous
J4_8C3A_003
NA
J4_8EUB_0041/A1/1492:1496,
1/A1/1520:1525,
1/A1/1614:1615,
1/A1/1829:1836		No text annotation
homologous
J4_8C3A_004
NA
J4_8EUB_0051/A1/1674:1675,
1/A1/1693:1698,
1/A1/1747:1753,
1/A1/1772:1773		No text annotation
J4_8EUB_0061/A1/2130:2134,
1/A1/2146:2150,
1/A1/2186:2190,
1/A1/2317:2322		No text annotation
homologous
J4_8C3A_006
NA
J4_8EUB_0071/A1/2192:2194,
1/A1/2248:2249,
1/A1/2267:2276,
1/A1/2310:2315		No text annotation
homologous
J4_8C3A_007
NA
J4_8EUB_0081/A1/2654:2658,
1/A1/2712:2716,
1/A1/2740:2742,
1/A1/2751:2753		No text annotation
homologous
J4_8C3A_008
NA
J4_8EUB_0091/A1/3010:3012,
1/A1/3042:3043,
1/A1/3098:3100,
1/A1/3134:3136		No text annotation
homologous
J4_8P9A_020
J4_37757.1
J4_8EUB_0101/B5/99:107,
1/B5/307:309,
1/B5/357:361,
1/B5/383:384		No text annotation
homologous
J4_8C3A_021
NA
J4_8EUB_0111/B5/622:624,
1/B5/975:980,
1/B5/1021:1032,
1/B5/1103:1104		No text annotation
homologous
J4_8C3A_022
NA
J5_8EUB_0011/A1/20:22,
1/A4/35:42,
1/A4/102:107,
1/A4/115:116,
1/A4/137:139		No text annotation
homologous
J5_8C3A_001
NA
J5_8EUB_0021/A1/658:663,
1/A1/799:802,
1/A1/941:944,
1/A1/1375:1376,
1/A1/1431:1437		No text annotation
homologous
J5_8C3A_002
NA
J5_8EUB_0031/A1/675:678,
1/A1/702:706,
1/A1/713:721,
1/A1/749:751,
1/A1/782:787		No text annotation
homologous
J5_8P9A_012
J5_56629.1
J5_8EUB_0041/A1/1906:1914,
1/A1/1938:1939,
1/A1/2109:2110,
1/A1/2114:2122,
1/A1/2331:2333		No text annotation
homologous
J5_8P9A_013
J5_99177.1
J5_8EUB_0051/A1/2399:2406,
1/A1/2815:2823,
1/A1/2867:2876,
1/A1/2951:2957,
1/A1/2975:2980		No text annotation
J5_8EUB_0061/A1/2416:2419,
1/A1/2611:2614,
1/A1/2627:2628,
1/A1/2650:2651,
1/A1/2798:2804		No text annotation
homologous
J5_8P9A_015
J5_96125.1
J5_8EUB_0071/B5/31:35,
1/B5/473:479,
1/B5/509:516,
1/B5/536:546,
1/B5/592:595		No text annotation
J5_8EUB_0081/B5/54:57,
1/B5/90:97,
1/B5/386:388,
1/B5/409:411,
1/B5/422:426		No text annotation
homologous
J5_8C3A_020
NA
J5_8EUB_0111/B5/636:641,
1/B5/693:700,
1/B5/738:744,
1/B5/807:817,
1/B5/854:860		No text annotation
J6_8EUB_0011/A1/22:27,
1/A1/58:68,
1/A1/75:79,
1/A1/106:110,
1/A1/321:331,
1/A4/32:35		No text annotation
J6_8EUB_0021/A1/2416:2419,
1/A1/2611:2614,
1/A1/2627:2628,
1/A1/2650:2653,
1/A1/2754:2765,
1/A1/2793:2804		No text annotation
J7_8EUB_0011/A1/949:956,
1/A1/965:968,
1/A1/1114:1117,
1/A1/1141:1146,
1/A1/1157:1161,
1/A1/1338:1339,
1/A1/1365:1370		No text annotation

Problematic loops

#loop idProblemSequence
J3_8EUB_003No text annotation
J3_8EUB_031No text annotation
J3_8EUB_004No text annotation
J3_8EUB_009No text annotation
J3_8EUB_013No text annotation
J3_8EUB_016No text annotation
J3_8EUB_017No text annotation
J3_8EUB_018No text annotation
J3_8EUB_019No text annotation
J3_8EUB_021No text annotation
J3_8EUB_046No text annotation
J3_8EUB_022No text annotation
J3_8EUB_023No text annotation
J5_8EUB_009No text annotation
J5_8EUB_010No text annotation

Coloring options:
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