RNA 3D Hub //

4V8Y Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_4V8Y_0091/B2/368:373No text annotation
homologous
HL_4V88_194
NA
HL_4V8Y_0101/B2/393:404No text annotation
homologous
HL_4V88_195
NA
HL_4V8Y_0111/B2/414:419UNCG
homologous
HL_4V88_196
NA
HL_4V8Y_0121/B2/450:456No text annotation
homologous
HL_4V88_197
NA
HL_4V8Y_0151/B2/569:574GNRA variation
homologous
HL_4V88_200
NA
HL_4V8Y_0211/B2/937:942GNRA
homologous
HL_4V88_207
NA
HL_4V8Y_0241/B2/1084:1089GNRA
homologous
HL_4V88_210
NA
HL_4V8Y_0371/B5/38:45No text annotation
geometric
HL_5TBW_001
NA
HL_4V8Y_0391/B5/90:96No text annotation
homologous
HL_5TBW_003
NA
HL_4V8Y_0411/B5/194:201T-loop with 2 stacked bulged bases
homologous
HL_5TBW_005
NA
HL_4V8Y_0421/B5/208:212No text annotation
homologous
HL_5TBW_006
NA
HL_4V8Y_0431/B5/216:224T-loop with unstacked turn
homologous
HL_5TBW_007
NA
HL_4V8Y_0441/B5/278:287No text annotation
homologous
HL_5TBW_008
NA
HL_4V8Y_0451/B5/303:312Pseudoknot geometry
homologous
HL_5TBW_009
NA
HL_4V8Y_0461/B5/357:362GNRA
homologous
HL_5TBW_010
NA
HL_4V8Y_0471/B5/382:387GNRA
homologous
HL_8C3A_011
NA
HL_4V8Y_0501/B5/640:649T-loop with 2 stacked bulged bases
homologous
HL_5TBW_014
NA
HL_4V8Y_0511/B5/686:694No text annotation
homologous
HL_5TBW_015
NA
HL_4V8Y_0561/B5/876:885No text annotation
homologous
HL_5TBW_020
NA
HL_4V8Y_0571/B5/910:918No text annotation
homologous
HL_5TBW_021
NA
HL_4V8Y_0581/B5/958:963Externally structured
homologous
HL_8C3A_022
NA
HL_4V8Y_0611/B5/1126:1132GNRA
homologous
HL_5TBW_025
NA
HL_4V8Y_0621/B5/1148:1155No text annotation
homologous
HL_5TBW_026
NA
HL_4V8Y_0681/B5/1506:1512Pseudoknot geometry with 3' bulge
homologous
HL_5TBW_032
NA
HL_4V8Y_0691/B5/1544:1549GNRA variation
homologous
HL_5TBW_033
NA
HL_4V8Y_0731/B5/1680:1688No text annotation
homologous
HL_5TBW_037
NA
HL_4V8Y_0771/B5/1844:1851No text annotation
homologous
HL_5TBW_041
NA
HL_4V8Y_0811/B5/2110:2114No text annotation
homologous
HL_5TBW_045
NA
HL_4V8Y_0821/B5/2135:2145No text annotation
homologous
HL_5TBW_046
NA
HL_4V8Y_0831/B5/2164:2170GNRA
homologous
HL_5TBW_047
NA
HL_4V8Y_0861/B5/2292:2300No text annotation
homologous
HL_5TBW_050
NA
HL_4V8Y_0871/B5/2369:2378No text annotation
homologous
HL_5TBW_051
NA
HL_4V8Y_0911/B5/2616:2624No text annotation
homologous
HL_5TBW_054
NA
HL_4V8Y_0921/B5/2633:2645No text annotation
homologous
HL_5TBW_055
NA
HL_4V8Y_0951/B5/2724:2732No text annotation
homologous
HL_5TBW_058
NA
HL_4V8Y_0971/B5/2776:2784Pseudoknot geometry
homologous
HL_5TBW_060
NA
HL_4V8Y_1001/B5/2920:2926No text annotation
homologous
HL_5TBW_063
NA
HL_4V8Y_1041/B5/3110:3124No text annotation
homologous
HL_5TBW_067
NA
HL_4V8Y_1061/B5/3240:3247No text annotation
homologous
HL_5TBW_069
NA
HL_4V8Y_1071/B5/3303:3311No text annotation
homologous
HL_8C3A_071
NA
HL_4V8Y_1261/B8/47:56No text annotation
homologous
HL_8P9A_186
HL_17803.1
HL_4V8Y_1121/B8/108:114No text annotation
homologous
HL_5TBW_075
NA
HL_4V8Y_1171/CW/53:61T-loop with 2 stacked bulged bases
homologous
HL_1QTQ_003
HL_33597.3

Problematic loops

#loop idProblemSequence
HL_4V8Y_001No text annotation
HL_4V8Y_002No text annotation
HL_4V8Y_003GNRA related
HL_4V8Y_004No text annotation
HL_4V8Y_118No text annotation
HL_4V8Y_005No text annotation
HL_4V8Y_006T-loop with 1 bulged base
HL_4V8Y_007Mini UNCG
HL_4V8Y_008GNRA related
HL_4V8Y_119No text annotation
HL_4V8Y_013No text annotation
HL_4V8Y_014No text annotation
HL_4V8Y_016No text annotation
HL_4V8Y_017No text annotation
HL_4V8Y_120No text annotation
HL_4V8Y_018No text annotation
HL_4V8Y_019Pseudoknot geometry
HL_4V8Y_020No text annotation
HL_4V8Y_022No text annotation
HL_4V8Y_023No text annotation
HL_4V8Y_121No text annotation
HL_4V8Y_025GNRA
HL_4V8Y_026No text annotation
HL_4V8Y_027Anticodon loop related
HL_4V8Y_028GNRA
HL_4V8Y_029No text annotation
HL_4V8Y_030No text annotation
HL_4V8Y_031GNRA
HL_4V8Y_032GNRA
HL_4V8Y_033No text annotation
HL_4V8Y_034No text annotation
HL_4V8Y_122No text annotation
HL_4V8Y_035No text annotation
HL_4V8Y_036GNRA variation
HL_4V8Y_038No text annotation
HL_4V8Y_040No text annotation
HL_4V8Y_048No text annotation
HL_4V8Y_049GNRA
HL_4V8Y_052GNRA
HL_4V8Y_053GNRA
HL_4V8Y_054No text annotation
HL_4V8Y_055GNRA
HL_4V8Y_123No text annotation
HL_4V8Y_059No text annotation
HL_4V8Y_060No text annotation
HL_4V8Y_063No text annotation
HL_4V8Y_064No text annotation
HL_4V8Y_065No text annotation
HL_4V8Y_066GNRA
HL_4V8Y_067T-loop with 2 stacked bulged bases
HL_4V8Y_070No text annotation
HL_4V8Y_071No text annotation
HL_4V8Y_072GNRA
HL_4V8Y_074No text annotation
HL_4V8Y_124No text annotation
HL_4V8Y_075GNRA related
HL_4V8Y_076Mini UNCG
HL_4V8Y_078GNRA
HL_4V8Y_079UNCG
HL_4V8Y_080No text annotation
HL_4V8Y_084GNRA
HL_4V8Y_085No text annotation
HL_4V8Y_088No text annotation
HL_4V8Y_089No text annotation
HL_4V8Y_090No text annotation
HL_4V8Y_093No text annotation
HL_4V8Y_094Pseudoknot geometry
HL_4V8Y_096GNRA
HL_4V8Y_098No text annotation
HL_4V8Y_099No text annotation
HL_4V8Y_101GNRA
HL_4V8Y_102GNRA
HL_4V8Y_103Ribsomal LSU H95
HL_4V8Y_105No text annotation
HL_4V8Y_108Mini UNCG
HL_4V8Y_125No text annotation
HL_4V8Y_109No text annotation
HL_4V8Y_110GNRA
HL_4V8Y_111No text annotation
HL_4V8Y_113No text annotation
HL_4V8Y_114UNCG variation
HL_4V8Y_115tRNA D-loop
HL_4V8Y_116No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_4V8Y_0021/B2/35:37,
1/B2/471:473		Isolated non-canonical cWW pair
homologous
IL_4V88_385
NA
IL_4V8Y_0031/B2/37:41,
1/B2/466:471		Triple sheared related
geometric
IL_4V88_386
NA
IL_4V8Y_0041/B2/42:48,
1/B2/431:433		No text annotation
homologous
IL_4V88_387
NA
IL_4V8Y_0051/B2/50:52,
1/B2/428:429		Minor groove platform
homologous
IL_4V88_388
NA
IL_4V8Y_0061/B2/58:63,
1/B2/87:89		No text annotation
homologous
IL_4V88_389
NA
IL_4V8Y_0081/B2/109:112,
1/B2/302:305		Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA
IL_4V8Y_0091/B2/113:116,
1/B2/300:301		Multiple bulged bases
homologous
IL_4V88_392
NA
IL_4V8Y_0201/B2/311:316,
1/B2/348:355		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_4V8Y_0211/B2/318:323,
1/B2/345:346		No text annotation
homologous
IL_4V88_403
NA
IL_4V8Y_0221/B2/363:365,
1/B2/376:381		No text annotation
homologous
IL_4V88_404
NA
IL_4V8Y_0231/B2/389:391,
1/B2/406:408		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_4V8Y_0251/B2/439:441,
1/B2/463:464		Single bulged U
homologous
IL_4V88_407
NA
IL_4V8Y_0261/B2/443:448,
1/B2/458:461		C-loop with extra cWW pair
homologous
IL_4V88_408
NA
IL_4V8Y_0281/B2/517:520,
1/B2/532:535		Double sheared
geometric
IL_4LFB_060
IL_58355.2
IL_4V8Y_0291/B2/550:557,
1/B2/587:588		SSU/LSU pseudoknot
geometric
IL_4V88_413
NA
IL_4V8Y_0321/B2/616:622,
1/B2/1104:1105		No text annotation
homologous
IL_4V88_416
NA
IL_4V8Y_0331/B2/624:626,
1/B2/973:975		Isolated non-canonical cWW pair
homologous
IL_4V88_417
NA
IL_4V8Y_0341/B2/627:631,
1/B2/968:972		tSH-tHW-tHS
homologous
IL_4V88_418
NA
IL_4V8Y_2511/B2/651:658,
1/B2/676:683		No text annotation
IL_4V8Y_0371/B2/652:658,
1/B2/676:682		No text annotation
IL_4V8Y_0391/B2/746:747,
1/B2/802:805		Major groove minor groove platform; mini C-loop
homologous
IL_4V88_423
NA
IL_4V8Y_0411/B2/751:760,
1/B2/790:798		No text annotation
IL_4V8Y_0441/B2/865:866,
1/B2/962:965		Major groove platform; stack outside cWW
homologous
IL_4V88_428
NA
IL_4V8Y_0471/B2/874:878,
1/B2/950:953		Tandem non-canonical cWW pairs
geometric
IL_4V88_431
NA
IL_4V8Y_0521/B2/1034:1036,
1/B2/1095:1101		No text annotation
homologous
IL_4V88_437
NA
IL_4V8Y_0551/B2/1111:1118,
1/B2/1129:1134		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4V88_440
NA
IL_4V8Y_0791/B2/1638:1641,
1/B2/1760:1764		No text annotation
homologous
IL_4V88_464
NA
IL_4V8Y_0821/B2/1650:1652,
1/B2/1748:1750		Isolated non-canonical cWW pair
homologous
IL_4V88_467
NA
IL_4V8Y_0831/B2/1653:1656,
1/B2/1744:1747		Double sheared
homologous
IL_4V88_468
NA
IL_4V8Y_0841/B2/1656:1658,
1/B2/1743:1744		Single bulged U
geometric
IL_6CZR_156
NA
IL_4V8Y_0881/B2/1675:1678,
1/B2/1723:1726		Tandem non-canonical cWW pairs
homologous
IL_4V88_473
NA
IL_4V8Y_0931/B5/7:8,
1/B8/150:152		Single bulged C
homologous
IL_8C3A_002
NA
IL_4V8Y_0951/B5/27:28,
1/B5/56:58		Single stack bend
homologous
IL_5TBW_004
NA
IL_4V8Y_0961/B5/31:38,
1/B5/45:53		tSH-tHW-tHH-tHS
homologous
IL_5TBW_005
NA
IL_4V8Y_0971/B5/82:89,
1/B5/97:103		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5TBW_006
NA
IL_4V8Y_0981/B5/123:124,
1/B5/144:149		No text annotation
geometric
IL_5TBW_007
NA
IL_4V8Y_2551/B5/168:174,
1/B5/244:254		No text annotation
IL_4V8Y_1051/B5/337:339,
1/B8/25:26		Single bulged A
homologous
IL_5TBW_013
NA
IL_4V8Y_1071/B5/404:410,
1/B8/13:19		Triple sheared with non-canonical cWW
homologous
IL_5TBW_015
NA
IL_4V8Y_1081/B5/429:431,
1/B5/628:630		Isolated non-canonical cWW pair
homologous
IL_5TBW_016
NA
IL_4V8Y_1131/B5/668:670,
1/B5/792:794		Isolated non-canonical cWW pair
homologous
IL_5TBW_021
NA
IL_4V8Y_1141/B5/680:684,
1/B5/696:700		No text annotation
homologous
IL_5TBW_022
NA
IL_4V8Y_1161/B5/752:753,
1/B5/779:781		Single bulged A
homologous
IL_5TBW_024
NA
IL_4V8Y_1191/B5/803:805,
1/B5/938:940		Isolated non-canonical cWW pair
geometric
IL_5TBW_027
NA
IL_4V8Y_1201/B5/805:809,
1/B5/931:938		tHW-tHW cross-strand stack
homologous
IL_5TBW_028
NA
IL_4V8Y_1211/B5/828:829,
1/B5/895:897		Single bulged A
homologous
IL_8C3A_031
NA
IL_4V8Y_1241/B5/869:872,
1/B5/888:890		Major groove platform with extra cWW
homologous
IL_5TBW_031
NA
IL_4V8Y_1251/B5/873:875,
1/B5/886:887		Single bulged U
homologous
IL_5TBW_032
NA
IL_4V8Y_1271/B5/954:956,
1/B5/965:967		Isolated non-canonical cWW pair
homologous
IL_5TBW_034
NA
IL_4V8Y_1281/B5/969:970,
1/B5/1111:1113		Single stack bend
homologous
IL_5TBW_035
NA
IL_4V8Y_2561/B5/977:981,
1/B5/1102:1104		No text annotation
homologous
IL_8P9A_264
IL_25463.2
IL_4V8Y_1301/B5/983:985,
1/B5/1099:1100		Single bulged G
homologous
IL_5TBW_037
NA
IL_4V8Y_1331/B5/999:1004,
1/B5/1046:1049		C-loop
homologous
IL_5TBW_040
NA
IL_4V8Y_1341/B5/1006:1009,
1/B5/1041:1044		Tandem non-canonical cWW pairs
homologous
IL_5TBW_041
NA
IL_4V8Y_1421/B5/1120:1122,
1/B5/1136:1138		Isolated non-canonical cWW pair
homologous
IL_5TBW_046
NA
IL_4V8Y_1441/B5/1167:1171,
1/B5/1328:1332		UAA/GAN
homologous
IL_5TBW_048
NA
IL_4V8Y_1451/B5/1173:1180,
1/B5/1325:1326		SSU/LSU pseudoknot
geometric
IL_5TBW_049
NA
IL_4V8Y_1461/B5/1180:1182,
1/B5/1324:1325		Single bulged U
homologous
IL_5TBW_050
NA
IL_4V8Y_1471/B5/1187:1194,
1/B5/1314:1319		No text annotation
homologous
IL_5TBW_051
NA
IL_4V8Y_1481/B5/1194:1205,
1/B5/1299:1314		No text annotation
geometric
IL_5TBW_052
NA
IL_4V8Y_1511/B5/1376:1378,
1/B5/1428:1431		Isolated cWS basepair
homologous
IL_5TBW_057
NA
IL_4V8Y_1521/B5/1385:1387,
1/B5/1420:1421		Single bulged A
homologous
IL_5TBW_058
NA
IL_4V8Y_1531/B5/1388:1395,
1/B5/1415:1419		Kink-turn
homologous
IL_5TBW_059
NA
IL_4V8Y_1541/B5/1398:1400,
1/B5/1411:1412		Single bulged A
homologous
IL_5TBW_060
NA
IL_4V8Y_1551/B5/1444:1450,
1/B5/2354:2359		7x6 Sarcin-Ricin; G-bulge
homologous
IL_5TBW_061
NA
IL_4V8Y_1561/B5/1492:1495,
1/B5/1835:1836		Major groove platform; stack outside cWW
geometric
IL_4V9F_050
IL_74641.2
IL_4V8Y_1571/B5/1500:1505,
1/B5/1513:1516		No text annotation
homologous
IL_5TBW_062
NA
IL_4V8Y_1601/B5/1618:1621,
1/B5/1824:1826		No text annotation
homologous
IL_8C3A_070
NA
IL_4V8Y_1691/B5/1702:1707,
1/B5/1737:1743		No text annotation
homologous
IL_8C3A_078
NA
IL_4V8Y_1711/B5/1883:1889,
1/B5/2346:2349		No text annotation
homologous
IL_5TBW_074
NA
IL_4V8Y_1731/B5/1898:1901,
1/B5/2336:2337		Major groove platform; stack outside cWW
geometric
IL_5TBW_076
NA
IL_4V8Y_2581/B5/1898:1906,
1/B5/2333:2337		No text annotation
homologous
IL_8P9A_305
IL_80252.1
IL_4V8Y_1741/B5/1901:1906,
1/B5/2333:2336		Intercalated tWH
homologous
IL_5TBW_077
NA
IL_4V8Y_1781/B5/2128:2129,
1/B5/2323:2325		Single bulged A
homologous
IL_5TBW_082
NA
IL_4V8Y_1791/B5/2156:2161,
1/B5/2173:2180		Kink-turn related
homologous
IL_5TBW_083
NA
IL_4V8Y_1851/B5/2391:2394,
1/B5/2986:2988		Major groove platform with extra pair
homologous
IL_5TBW_091
NA
IL_4V8Y_1861/B5/2396:2398,
1/B5/2981:2984		Major groove platform with intercalation
homologous
IL_5TBW_092
NA
IL_4V8Y_1871/B5/2409:2411,
1/B5/2811:2812		Single bulged U
homologous
IL_5TBW_093
NA
IL_4V8Y_1881/B5/2412:2413,
1/B5/2807:2810		Minor groove platform
homologous
IL_5TBW_094
NA
IL_4V8Y_1891/B5/2423:2425,
1/B5/2604:2607		Isolated tHS basepair with bulges
homologous
IL_5TBW_095
NA
IL_4V8Y_1901/B5/2520:2526,
1/B5/2584:2587		No text annotation
homologous
IL_5TBW_096
NA
IL_4V8Y_1921/B5/2614:2615,
1/B5/2625:2627		Single bulged A
homologous
IL_8C3A_107
NA
IL_4V8Y_1961/B5/2770:2773,
1/B5/2787:2788		Single stack bend
homologous
IL_5TBW_101
NA
IL_4V8Y_1971/B5/2823:2824,
1/B5/2865:2867		Major groove platform
geometric
IL_5TBW_102
NA
IL_4V8Y_1991/B5/2826:2828,
1/B5/2862:2863		Major groove platform
geometric
IL_4V9F_083
IL_46637.2
IL_4V8Y_2001/B5/2828:2830,
1/B5/2858:2862		Major groove minor groove platform with extra cWW
homologous
IL_5TBW_105
NA
IL_4V8Y_2011/B5/2835:2839,
1/B5/2849:2853		Triple sheared
homologous
IL_5TBW_106
NA
IL_4V8Y_2031/B5/2879:2881,
1/B5/2943:2947		No text annotation
homologous
IL_8C3A_116
NA
IL_4V8Y_2041/B5/2881:2882,
1/B5/2940:2943		Multiple bulged bases
homologous
IL_5TBW_109
NA
IL_4V8Y_2051/B5/2889:2891,
1/B5/2912:2914		Isolated non-canonical cWW pair
geometric
IL_5TBW_110
NA
IL_4V8Y_2611/B5/2889:2892,
1/B5/2909:2914		No text annotation
homologous
IL_8P9A_338
IL_07469.3
IL_4V8Y_2061/B5/2891:2892,
1/B5/2909:2912		Major groove platform with intercalation
homologous
IL_5TBW_111
NA
IL_4V8Y_2081/B5/2960:2961,
1/B5/2970:2972		Single bulged A
homologous
IL_5TBW_113
NA
IL_4V8Y_2101/B5/3012:3014,
1/B5/3040:3042		Isolated non-canonical cWW pair
homologous
IL_8C3A_124
NA
IL_4V8Y_2111/B5/3018:3025,
1/B5/3030:3036		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5TBW_116
NA
IL_4V8Y_2121/B5/3047:3051,
1/B5/3091:3094		Major groove minor groove platform with tHH
homologous
IL_5TBW_117
NA
IL_4V8Y_2131/B5/3054:3059,
1/B5/3084:3088		UAA/GAN related
homologous
IL_5TBW_118
NA
IL_4V8Y_2141/B5/3063:3064,
1/B5/3077:3080		Multiple bulged bases
homologous
IL_5TBW_119
NA
IL_4V8Y_2171/B5/3168:3170,
1/B5/3280:3282		Isolated non-canonical cWW pair
homologous
IL_5TBW_122
NA
IL_4V8Y_2191/B5/3179:3188,
1/B5/3204:3210		No text annotation
homologous
IL_5TBW_124
NA
IL_4V8Y_2261/B5/3324:3325,
1/B5/3381:3383		Single bulged U
homologous
IL_5TBW_131
NA
IL_4V8Y_2271/B5/3328:3330,
1/B5/3373:3378		Isolated non-canonical cWW pair
homologous
IL_5TBW_132
NA
IL_4V8Y_2301/B5/3342:3345,
1/B5/3360:3363		Double sheared
geometric
IL_4V9F_100
IL_58355.2
IL_4V8Y_2391/B8/44:64,
1/B8/96:100		No text annotation
geometric
IL_5TBW_144
NA
IL_4V8Y_2401/B8/64:66,
1/B8/93:96		Isolated non-canonical cWW pair
geometric
IL_5TBW_145
NA

Problematic loops

#loop idProblemSequence
IL_4V8Y_001Single bulged C
IL_4V8Y_007No text annotation
IL_4V8Y_010No text annotation
IL_4V8Y_011tWH-tWH-tHW-tHW
IL_4V8Y_012Isolated cWH basepair
IL_4V8Y_013Double sheared
IL_4V8Y_014Major groove platform with extra cWW
IL_4V8Y_015Isolated non-canonical cWW pair
IL_4V8Y_016No text annotation
IL_4V8Y_017Single bulged A
IL_4V8Y_018No text annotation
IL_4V8Y_019Single bulged U
IL_4V8Y_024Isolated near basepair
IL_4V8Y_027No text annotation
IL_4V8Y_030Single bulged U
IL_4V8Y_031Kink-turn related
IL_4V8Y_035Isolated non-canonical cWW pair
IL_4V8Y_036Isolated non-canonical cWW pair
IL_4V8Y_038Isolated non-canonical cWW pair
IL_4V8Y_040Isolated non-canonical cWW pair
IL_4V8Y_042No text annotation
IL_4V8Y_043Isolated cWH basepair
IL_4V8Y_045Tandem non-canonical cWW pairs
IL_4V8Y_252Isolated non-canonical cWW pair
IL_4V8Y_046Tandem non-canonical cWW pairs
IL_4V8Y_048Tandem non-canonical cWW pairs
IL_4V8Y_049Kink-turn related
IL_4V8Y_050Other IL
IL_4V8Y_051tSH-tHW-tHS
IL_4V8Y_053Tandem non-canonical cWW pairs
IL_4V8Y_054Single bulged U
IL_4V8Y_056Single bulged A
IL_4V8Y_057Single bulged G
IL_4V8Y_058C-loop
IL_4V8Y_059Isolated non-canonical cWW pair
IL_4V8Y_060Minor groove platform
IL_4V8Y_061Isolated non-canonical cWW pair
IL_4V8Y_062No text annotation
IL_4V8Y_253No text annotation
IL_4V8Y_063No text annotation
IL_4V8Y_064No text annotation
IL_4V8Y_065Single bulged U
IL_4V8Y_066No text annotation
IL_4V8Y_067Single bulged A
IL_4V8Y_068Isolated cWH basepair
IL_4V8Y_069Minor groove platform
IL_4V8Y_070Isolated non-canonical cWW pair
IL_4V8Y_071Minor groove platform
IL_4V8Y_254No text annotation
IL_4V8Y_072Isolated non-canonical cWW pair
IL_4V8Y_073Major groove platform; stack outside cWW
IL_4V8Y_074No text annotation
IL_4V8Y_075180 degree turn
IL_4V8Y_076Tandem non-canonical cWW pairs
IL_4V8Y_077No text annotation
IL_4V8Y_078No text annotation
IL_4V8Y_080Isolated non-canonical cWW pair
IL_4V8Y_081Non canonical cWW and near pair
IL_4V8Y_085Isolated non-canonical cWW pair
IL_4V8Y_086Double sheared
IL_4V8Y_087Isolated non-canonical cWW pair
IL_4V8Y_089Triple sheared
IL_4V8Y_090No text annotation
IL_4V8Y_091Tandem non-canonical cWW pairs
IL_4V8Y_092Isolated cWS basepair
IL_4V8Y_094Single bulged U
IL_4V8Y_099Isolated non-canonical cWW pair
IL_4V8Y_100Single stack bend
IL_4V8Y_101Isolated non-canonical cWW pair
IL_4V8Y_102No text annotation
IL_4V8Y_103Major groove platform with extra pair
IL_4V8Y_104Single bulged U
IL_4V8Y_106No text annotation
IL_4V8Y_109No text annotation
IL_4V8Y_110Single bulged A
IL_4V8Y_111No text annotation
IL_4V8Y_112No text annotation
IL_4V8Y_115UAA/GAN variation
IL_4V8Y_117Single bulged U
IL_4V8Y_118No text annotation
IL_4V8Y_122Single bulged G
IL_4V8Y_123Triple sheared
IL_4V8Y_126No text annotation
IL_4V8Y_129Kink-turn related
IL_4V8Y_1317x7 Sarcin-Ricin with intercalated A; G-bulge
IL_4V8Y_132Minor groove platform
IL_4V8Y_135Isolated non-canonical cWW pair
IL_4V8Y_136No text annotation
IL_4V8Y_137Multiple bulged bases
IL_4V8Y_138Isolated non-canonical cWW pair
IL_4V8Y_139Tandem non-canonical cWW pairs
IL_4V8Y_140Isolated non-canonical cWW pair
IL_4V8Y_141Single bulged A
IL_4V8Y_143No text annotation
IL_4V8Y_149Single bulged U
IL_4V8Y_150No text annotation
IL_4V8Y_158UAA/GAN
IL_4V8Y_159Isolated cWH basepair
IL_4V8Y_257Major groove platform related
IL_4V8Y_161No text annotation
IL_4V8Y_162Isolated non-canonical cWW pair
IL_4V8Y_163No text annotation
IL_4V8Y_164Triple sheared
IL_4V8Y_165Isolated non-canonical cWW pair
IL_4V8Y_166Single bulged C
IL_4V8Y_167Single stack bend
IL_4V8Y_168No text annotation
IL_4V8Y_170Kink-turn
IL_4V8Y_172Isolated tWW turn
IL_4V8Y_175tSH-tSH-tHH-tHS
IL_4V8Y_176Isolated non-canonical cWW pair
IL_4V8Y_177No text annotation
IL_4V8Y_180Major groove intercalation
IL_4V8Y_181Multiple bulged bases
IL_4V8Y_182Single bulged U
IL_4V8Y_259No text annotation
IL_4V8Y_260No text annotation
IL_4V8Y_183Bulged stacked bases
IL_4V8Y_184No text annotation
IL_4V8Y_191Isolated non-canonical cWW pair
IL_4V8Y_193Isolated tHS basepair with bulges
IL_4V8Y_194Single bulged A
IL_4V8Y_195Tandem non-canonical cWW pairs
IL_4V8Y_198Isolated non-canonical cWW pair
IL_4V8Y_202Major groove platform
IL_4V8Y_207Isolated non-canonical cWW pair
IL_4V8Y_209Double sheared
IL_4V8Y_215UAA/GAN
IL_4V8Y_216No text annotation
IL_4V8Y_262Isolated non-canonical cWW pair
IL_4V8Y_218Single bulged A
IL_4V8Y_220Single bulged U
IL_4V8Y_221No text annotation
IL_4V8Y_222Isolated non-canonical cWW pair
IL_4V8Y_223Tandem non-canonical cWW pairs
IL_4V8Y_224Tandem non-canonical cWW pairs
IL_4V8Y_225Single bulged U
IL_4V8Y_228No text annotation
IL_4V8Y_229Single bulged U
IL_4V8Y_231Multiple bulged bases
IL_4V8Y_232Single bulged A
IL_4V8Y_233Minor groove platform related
IL_4V8Y_234Minor groove platform
IL_4V8Y_235Single stack bend
IL_4V8Y_236Symmetric double minor groove platform
IL_4V8Y_2378x7 Sarcin-Ricin; G-bulge
IL_4V8Y_238Isolated non-canonical cWW pair
IL_4V8Y_241Single bulged U
IL_4V8Y_242Isolated non-canonical cWW pair
IL_4V8Y_243No text annotation
IL_4V8Y_244Isolated cWH basepair
IL_4V8Y_245No text annotation
IL_4V8Y_246Kink-turn
IL_4V8Y_247Stack and bulge
IL_4V8Y_248Isolated non-canonical cWW pair
IL_4V8Y_249Isolated non-canonical cWW pair
IL_4V8Y_250No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_4V8Y_0211/B2/41:42,
1/B2/433:439,
1/B2/464:466		No text annotation
geometric
J3_4V88_078
NA
J3_4V8Y_0221/B2/41:48,
1/B2/431:439,
1/B2/464:466		No text annotation
homologous
J3_8P9A_069
J3_63856.1
J3_4V8Y_0241/B2/633:635,
1/B2/861:865,
1/B2/965:966		No text annotation
geometric
J3_4V88_080
NA
J3_4V8Y_0251/B2/633:635,
1/B2/861:866,
1/B2/962:966		No text annotation
homologous
J3_8P9A_072
J3_17385.5
J3_4V8Y_0011/B2/760:763,
1/B2/773:775,
1/B2/785:790		No text annotation
homologous
J3_8P9A_073
J3_97642.2
J3_4V8Y_0021/B2/881:884,
1/B2/928:936,
1/B2/943:947		No text annotation
homologous
J3_4V88_033
NA
J3_4V8Y_0031/B2/1037:1039,
1/B2/1079:1083,
1/B2/1090:1094		No text annotation
homologous
J3_4V88_034
NA
J3_4V8Y_0081/B2/1283:1288,
1/B2/1327:1332,
1/B2/1419:1424		No text annotation
homologous
J3_4V88_039
NA
J3_4V8Y_0091/B2/1336:1338,
1/B2/1386:1389,
1/B2/1412:1415		No text annotation
homologous
J3_4V88_040
NA
J3_4V8Y_0271/B2/1336:1338,
1/B2/1386:1391,
1/B2/1407:1415		No text annotation
homologous
J3_8P9A_083
J3_88233.1
J3_4V8Y_0111/B5/113:123,
1/B5/149:158,
1/B5/263:267		No text annotation
homologous
J3_8P9A_042
J3_69230.1
J3_4V8Y_0281/B5/113:124,
1/B5/144:158,
1/B5/263:267		No text annotation
J3_4V8Y_0291/B5/185:189,
1/B5/205:214,
1/B5/226:231		No text annotation
homologous
J3_8P9A_044
J3_97456.1
J3_4V8Y_0301/B5/340:356,
1/B5/363:368,
1/B8/21:24		No text annotation
homologous
J3_8P9A_045
J3_07616.1
J3_4V8Y_0121/B5/814:820,
1/B5/905:907,
1/B5/923:926		No text annotation
homologous
J3_5TBW_004
NA
J3_4V8Y_0131/B5/829:831,
1/B5/863:867,
1/B5/892:895		No text annotation
homologous
J3_8C3A_004
NA
J3_4V8Y_0141/B5/1479:1485,
1/B5/1857:1859,
1/B5/1871:1874		No text annotation
homologous
J3_5TBW_008
NA
J3_4V8Y_0151/B5/1488:1491,
1/B5/1837:1843,
1/B5/1852:1854		No text annotation
homologous
J3_5TBW_009
NA
J3_4V8Y_0371/B5/1631:1632,
1/B5/1641:1645,
1/B5/1810:1811		No text annotation
homologous
J3_8C3A_054
NA
J3_4V8Y_0381/B5/1654:1658,
1/B5/1791:1792,
1/B5/1796:1801		No text annotation
homologous
J3_8P9A_058
J3_08594.1
J3_4V8Y_0161/B5/2432:2435,
1/B5/2512:2517,
1/B5/2590:2597		No text annotation
homologous
J3_5TBW_012
NA
J3_4V8Y_0171/B5/2529:2532,
1/B5/2547:2563,
1/B5/2578:2581		No text annotation
homologous
J3_8P9A_060
J3_76247.1
J3_4V8Y_0391/B5/2651:2653,
1/B5/2754:2765,
1/B5/2793:2798		No text annotation
homologous
J3_8P9A_061
J3_04772.1
J3_4V8Y_0191/B5/2886:2889,
1/B5/2914:2916,
1/B5/2930:2936		No text annotation
homologous
J3_5TBW_014
NA
J3_4V8Y_0401/B5/3171:3176,
1/B5/3212:3220,
1/B5/3265:3279		No text annotation
homologous
J3_8P9A_064
J3_03190.1
J3_4V8Y_0201/B5/3298:3300,
1/B5/3314:3318,
1/B5/3388:3390		No text annotation
homologous
J3_5TBW_015
NA
J3_4V8Y_0411/B7/9:14,
1/B7/66:67,
1/B7/111:112		No text annotation
homologous
J3_8P9A_066
J3_26985.1
J3_4V8Y_0421/B8/44:45,
1/B8/58:64,
1/B8/96:100		No text annotation
homologous
J3_8P9A_067
J3_01004.1
J4_4V8Y_0011/B2/99:107,
1/B2/307:309,
1/B2/357:361,
1/B2/383:384		No text annotation
homologous
J4_8P9A_021
J4_15241.2
J4_4V8Y_0021/B2/622:624,
1/B2/975:980,
1/B2/1021:1032,
1/B2/1103:1104		No text annotation
homologous
J4_8P9A_022
J4_14595.1
J4_4V8Y_0031/B5/112:113,
1/B5/267:272,
1/B5/293:299,
1/B5/316:319		No text annotation
homologous
J4_8P9A_012
J4_94698.1
J4_4V8Y_0041/B5/185:189,
1/B5/205:208,
1/B5/212:214,
1/B5/226:231		No text annotation
homologous
J4_8P9A_013
J4_43318.1
J4_4V8Y_0051/B5/1451:1457,
1/B5/1475:1476,
1/B5/1877:1880,
1/B5/2352:2353		No text annotation
homologous
J4_8P9A_014
J4_34212.1
J4_4V8Y_0061/B5/1492:1496,
1/B5/1520:1525,
1/B5/1614:1615,
1/B5/1829:1836		No text annotation
J4_4V8Y_0071/B5/1495:1496,
1/B5/1520:1525,
1/B5/1614:1615,
1/B5/1829:1835		No text annotation
J4_4V8Y_0131/B5/3010:3012,
1/B5/3042:3043,
1/B5/3098:3100,
1/B5/3134:3136		No text annotation
homologous
J4_8P9A_020
J4_37757.1
J5_4V8Y_0011/B2/31:35,
1/B2/473:479,
1/B2/509:516,
1/B2/536:546,
1/B2/592:595		No text annotation
J5_4V8Y_0021/B2/54:57,
1/B2/90:97,
1/B2/386:388,
1/B2/409:411,
1/B2/422:426		No text annotation
homologous
J5_8P9A_017
J5_58574.1
J5_4V8Y_0051/B2/636:641,
1/B2/693:698,
1/B2/740:744,
1/B2/807:817,
1/B2/854:860		No text annotation
J5_4V8Y_0061/B5/20:22,
1/B8/35:42,
1/B8/102:107,
1/B8/115:116,
1/B8/137:139		No text annotation
homologous
J5_8P9A_010
J5_27223.1
J5_4V8Y_0071/B5/658:663,
1/B5/799:802,
1/B5/941:944,
1/B5/1375:1376,
1/B5/1431:1437		No text annotation
homologous
J5_8P9A_011
J5_08384.1
J5_4V8Y_0081/B5/675:678,
1/B5/702:706,
1/B5/713:721,
1/B5/749:751,
1/B5/782:787		No text annotation
homologous
J5_8P9A_012
J5_56629.1
J5_4V8Y_0091/B5/1906:1914,
1/B5/1938:1939,
1/B5/2109:2110,
1/B5/2114:2122,
1/B5/2331:2333		No text annotation
homologous
J5_8P9A_013
J5_99177.1
J5_4V8Y_0101/B5/2399:2406,
1/B5/2815:2823,
1/B5/2867:2875,
1/B5/2952:2957,
1/B5/2975:2980		No text annotation
J5_4V8Y_0111/B5/2416:2419,
1/B5/2611:2614,
1/B5/2627:2628,
1/B5/2650:2651,
1/B5/2798:2804		No text annotation
homologous
J5_8P9A_015
J5_96125.1
J6_4V8Y_0021/B5/2416:2419,
1/B5/2611:2614,
1/B5/2627:2628,
1/B5/2650:2653,
1/B5/2754:2765,
1/B5/2793:2804		No text annotation
J7_4V8Y_0011/B5/949:954,
1/B5/967:968,
1/B5/1114:1117,
1/B5/1141:1146,
1/B5/1157:1161,
1/B5/1338:1339,
1/B5/1365:1370		No text annotation

Problematic loops

#loop idProblemSequence
J3_4V8Y_023No text annotation
J3_4V8Y_004No text annotation
J3_4V8Y_005No text annotation
J3_4V8Y_006No text annotation
J3_4V8Y_007No text annotation
J3_4V8Y_026No text annotation
J3_4V8Y_010No text annotation
J3_4V8Y_031No text annotation
J3_4V8Y_032No text annotation
J3_4V8Y_033No text annotation
J3_4V8Y_034No text annotation
J3_4V8Y_035No text annotation
J3_4V8Y_036No text annotation
J3_4V8Y_018No text annotation
J4_4V8Y_008No text annotation
J4_4V8Y_009No text annotation
J4_4V8Y_010No text annotation
J4_4V8Y_011No text annotation
J4_4V8Y_012No text annotation
J4_4V8Y_014No text annotation
J5_4V8Y_003No text annotation
J5_4V8Y_004No text annotation
J6_4V8Y_001No text annotation

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