RNA 3D Hub //

6W2S Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6W2S_0011/0/392:399No text annotation
geometric
HL_5TBW_021
NA
HL_6W2S_0021/0/408:435No text annotation
HL_6W2S_0031/0/484:492No text annotation
HL_6W2S_0041/0/531:546No text annotation
HL_6W2S_0051/0/557:563No text annotation
geometric
HL_4WF9_011
HL_75660.5
HL_6W2S_0061/0/625:640No text annotation
HL_6W2S_0071/0/647:656No text annotation
geometric
HL_1GID_008
NA
HL_6W2S_0081/A/7:17No text annotation
homologous
HL_4V88_186
NA
HL_6W2S_0091/A/69:80No text annotation
geometric
HL_2ZZM_002
HL_13963.3
HL_6W2S_0101/A/156:162GNRA related
homologous
HL_4V88_188
NA
HL_6W2S_0431/A/197:202No text annotation
geometric
HL_5ID6_001
HL_69752.2
HL_6W2S_0121/A/288:295T-loop with 1 bulged base
homologous
HL_4V88_191
NA
HL_6W2S_0131/A/319:332No text annotation
HL_6W2S_0141/A/377:387No text annotation
HL_6W2S_0151/A/416:421No text annotation
homologous
HL_4V88_194
NA
HL_6W2S_0161/A/441:452No text annotation
homologous
HL_4V88_195
NA
HL_6W2S_0171/A/462:467UNCG
homologous
HL_4V88_196
NA
HL_6W2S_0181/A/498:504No text annotation
homologous
HL_4V88_197
NA
HL_6W2S_0191/A/539:544No text annotation
homologous
HL_4V88_198
NA
HL_6W2S_0201/A/569:581No text annotation
geometric
HL_4V88_199
NA
HL_6W2S_0211/A/618:623GNRA variation
homologous
HL_4V88_200
NA
HL_6W2S_0451/A/755:789No text annotation
HL_6W2S_0221/A/820:828No text annotation
homologous
HL_4V88_203
NA
HL_6W2S_0231/A/833:841No text annotation
geometric
HL_8H9D_001
NA
HL_6W2S_0241/A/885:901No text annotation
HL_6W2S_0251/A/957:966No text annotation
homologous
HL_4V88_206
NA
HL_6W2S_0261/A/994:999GNRA
homologous
HL_4V88_207
NA
HL_6W2S_0271/A/1054:1064No text annotation
homologous
HL_4V88_208
NA
HL_6W2S_0281/A/1112:1121No text annotation
HL_6W2S_0291/A/1141:1146GNRA
homologous
HL_4V88_210
NA
HL_6W2S_0301/A/1178:1183GNRA
homologous
HL_4V88_211
NA
HL_6W2S_0311/A/1245:1254No text annotation
homologous
HL_4V88_212
NA
HL_6W2S_0461/A/1295:1304GNRA wlth extra near cWW
homologous
HL_8P9A_216
HL_81538.2
HL_6W2S_0331/A/1353:1358GNRA
homologous
HL_4V88_214
NA
HL_6W2S_0341/A/1366:1373No text annotation
homologous
HL_4V88_215
NA
HL_6W2S_0351/A/1416:1424No text annotation
geometric
HL_2ZZM_002
HL_13963.3
HL_6W2S_0361/A/1460:1466GNRA
homologous
HL_4V88_217
NA
HL_6W2S_0371/A/1565:1570GNRA
homologous
HL_4V88_218
NA
HL_6W2S_0381/A/1614:1625No text annotation
homologous
HL_4V88_219
NA
HL_6W2S_0391/A/1658:1666No text annotation
homologous
HL_4V88_220
NA
HL_6W2S_0401/A/1759:1773No text annotation
HL_6W2S_0411/A/1847:1852GNRA variation
homologous
HL_4V88_222
NA

Problematic loops

#loop idProblemSequence
HL_6W2S_042No text annotation
HL_6W2S_011No text annotation
HL_6W2S_044No text annotation
HL_6W2S_032No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6W2S_0011/0/362:367,
1/0/457:461		No text annotation
IL_6W2S_0021/0/371:373,
1/0/450:453		Isolated non-canonical cWW with bulges
geometric
IL_5J7L_340
IL_07785.1
IL_6W2S_0031/0/374:378,
1/0/445:449		Double sheared with non-canonical cWW
geometric
IL_4WFL_001
IL_17948.2
IL_6W2S_1071/0/374:382,
1/0/439:449		No text annotation
IL_6W2S_0041/0/378:382,
1/0/439:445		No text annotation
IL_6W2S_0051/0/390:392,
1/0/399:401		Isolated non-canonical cWW pair
geometric
IL_5TBW_110
NA
IL_6W2S_0061/0/521:523,
1/0/570:572		Isolated non-canonical cWW pair
geometric
IL_7A0S_026
IL_87907.2
IL_6W2S_0071/0/594:600,
1/0/682:689		8x7 Sarcin-Ricin with CC bifurcated pair; G-bulge
geometric
IL_4V9F_012
IL_59724.1
IL_6W2S_0081/0/600:605,
1/0/676:682		tSH-tSH-tHH-tHS
geometric
IL_4V9F_063
IL_47346.2
IL_6W2S_0091/0/614:616,
1/0/666:667		Single stack bend
geometric
IL_5TBW_035
NA
IL_6W2S_1081/0/614:618,
1/0/664:667		No text annotation
IL_6W2S_1091/0/619:647,
1/0/656:663		No text annotation
IL_6W2S_0101/A/23:25,
1/A/649:651		Isolated non-canonical cWW pair
geometric
IL_4M4O_001
IL_87907.2
IL_6W2S_0111/A/34:36,
1/A/519:521		Isolated non-canonical cWW pair
homologous
IL_4V88_385
NA
IL_6W2S_0121/A/37:40,
1/A/514:518		Double sheared
geometric
IL_4WF9_016
IL_09705.15
IL_6W2S_0131/A/41:47,
1/A/479:481		No text annotation
geometric
IL_4V88_387
NA
IL_6W2S_0141/A/49:51,
1/A/476:477		Minor groove platform
homologous
IL_4V88_388
NA
IL_6W2S_0151/A/57:62,
1/A/86:88		No text annotation
homologous
IL_4V88_389
NA
IL_6W2S_0161/A/63:68,
1/A/81:85		No text annotation
homologous
IL_4V88_390
NA
IL_6W2S_0171/A/108:110,
1/A/351:353		Isolated non-canonical cWW pair
geometric
IL_1T0E_002
IL_28037.2
IL_6W2S_0181/A/110:112,
1/A/349:351		Isolated non-canonical cWW pair
geometric
IL_4WF9_042
IL_87907.2
IL_6W2S_0191/A/112:115,
1/A/348:349		Multiple bulged bases
geometric
IL_4V88_392
NA
IL_6W2S_0201/A/116:121,
1/A/343:347		No text annotation
homologous
IL_4V88_393
NA
IL_6W2S_0211/A/123:124,
1/A/339:341		Minor groove platform
geometric
IL_4UYK_001
IL_51454.3
IL_6W2S_0221/A/130:144,
1/A/175:182		No text annotation
IL_6W2S_0231/A/145:151,
1/A/167:174		tWH-tWH-tHW-tHW
homologous
IL_4V88_394
NA
IL_6W2S_0241/A/152:154,
1/A/164:166		Isolated non-canonical cWW contact
homologous
IL_4V88_395
NA
IL_6W2S_0251/A/188:192,
1/A/207:211		Double sheared with non-canonical cWW
geometric
IL_4WFL_001
IL_17948.2
IL_6W2S_0261/A/193:195,
1/A/205:206		Single stack bend
geometric
IL_4LFB_041
IL_90729.1
IL_6W2S_0271/A/195:196,
1/A/203:205		Single stack bend
geometric
IL_7A0S_054
IL_26793.1
IL_6W2S_0281/A/216:219,
1/A/302:309		Tandem non-canonical cWW pairs
geometric
IL_1GID_008
NA
IL_6W2S_0291/A/223:288,
1/A/295:298		No text annotation
IL_6W2S_0301/A/312:314,
1/A/336:337		Single bulged A
homologous
IL_4V88_399
NA
IL_6W2S_1101/A/317:319,
1/A/332:333		Single stack bend
geometric
IL_5TBW_009
NA
IL_6W2S_0321/A/359:364,
1/A/396:403		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_6W2S_0331/A/366:371,
1/A/393:394		No text annotation
geometric
IL_5Y58_001
IL_59877.1
IL_6W2S_0341/A/411:413,
1/A/424:429		No text annotation
homologous
IL_4V88_404
NA
IL_6W2S_0351/A/437:439,
1/A/454:456		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_6W2S_0361/A/459:461,
1/A/468:470		Isolated near basepair
homologous
IL_4V88_406
NA
IL_6W2S_0371/A/487:489,
1/A/511:512		Single bulged U
geometric
IL_4V88_407
NA
IL_6W2S_0381/A/491:495,
1/A/508:509		C-loop
geometric
IL_5J7L_018
IL_03109.3
IL_6W2S_0391/A/495:496,
1/A/506:508		Single bulged G
geometric
IL_5J7L_019
IL_00225.14
IL_6W2S_0401/A/529:530,
1/A/554:556		Single bulged A
homologous
IL_4V88_409
NA
IL_6W2S_0411/A/535:537,
1/A/546:549		No text annotation
IL_6W2S_0421/A/563:565,
1/A/585:592		No text annotation
homologous
IL_8C3A_420
NA
IL_6W2S_0431/A/566:569,
1/A/581:584		tSH-tHW
geometric
IL_5UNE_005
IL_85033.2
IL_6W2S_0441/A/599:608,
1/A/635:637		No text annotation
IL_6W2S_0451/A/611:617,
1/A/624:632		Kink-turn related
homologous
IL_4V88_415
NA
IL_6W2S_0461/A/663:665,
1/A/1162:1164		Isolated non-canonical cWW pair
geometric
IL_1Y27_001
IL_87907.2
IL_6W2S_0471/A/665:671,
1/A/1161:1162		No text annotation
homologous
IL_4V88_416
NA
IL_6W2S_0481/A/673:675,
1/A/1030:1032		Isolated non-canonical cWW pair
homologous
IL_4V88_417
NA
IL_6W2S_0491/A/676:680,
1/A/1025:1029		tSH-tHW-tHS
homologous
IL_4V88_418
NA
IL_6W2S_1111/A/692:694,
1/A/732:734		Isolated non-canonical cWW pair
geometric
IL_1Z7F_005
IL_87907.2
IL_6W2S_0511/A/745:749,
1/A/794:796		No text annotation
IL_6W2S_0521/A/752:754,
1/A/790:791		No text annotation
IL_6W2S_0531/A/802:803,
1/A/860:863		Major groove minor groove platform; mini C-loop
homologous
IL_4V88_423
NA
IL_6W2S_0541/A/805:807,
1/A/856:858		Isolated non-canonical cWW pair
homologous
IL_4V88_424
NA
IL_6W2S_1221/A/807:815,
1/A/849:856		No text annotation
homologous
IL_8CRE_430
IL_59049.1
IL_6W2S_0561/A/874:876,
1/A/910:912		Isolated non-canonical cWW pair
geometric
IL_5Y85_006
IL_87907.2
IL_6W2S_0571/A/877:879,
1/A/907:909		Isolated non-canonical cWW pair
geometric
IL_5TBW_042
NA
IL_6W2S_0581/A/922:923,
1/A/1019:1022		Major groove platform; stack outside cWW
geometric
IL_6N5P_003
IL_50694.7
IL_6W2S_1121/A/925:926,
1/A/1015:1017		Single bulged U
geometric
IL_3NDB_005
IL_89505.4
IL_6W2S_0601/A/928:931,
1/A/1010:1013		Tandem non-canonical cWW pairs
geometric
IL_4V88_430
NA
IL_6W2S_0611/A/931:935,
1/A/1007:1010		Tandem non-canonical cWW pairs
homologous
IL_4V88_431
NA
IL_6W2S_0621/A/942:945,
1/A/981:984		Tandem non-canonical cWW pairs
homologous
IL_4V88_432
NA
IL_6W2S_0631/A/952:956,
1/A/967:974		Kink-turn
homologous
IL_4V88_434
NA
IL_6W2S_0641/A/1042:1047,
1/A/1071:1073		Other IL
geometric
IL_4V88_435
NA
IL_6W2S_0651/A/1047:1051,
1/A/1067:1071		tSH-tHW-tHS
homologous
IL_4V88_436
NA
IL_6W2S_0661/A/1091:1093,
1/A/1152:1158		No text annotation
homologous
IL_4V88_437
NA
IL_6W2S_0671/A/1098:1101,
1/A/1131:1134		Tandem non-canonical cWW pairs
homologous
IL_4V88_438
NA
IL_6W2S_0681/A/1101:1103,
1/A/1129:1131		Isolated non-canonical cWW pair
geometric
IL_4V88_465
NA
IL_6W2S_0691/A/1108:1110,
1/A/1123:1124		Minor groove platform
geometric
IL_4V88_412
NA
IL_6W2S_0701/A/1168:1175,
1/A/1186:1191		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4V88_440
NA
IL_6W2S_0711/A/1203:1204,
1/A/1694:1696		Single bulged A
homologous
IL_4V88_441
NA
IL_6W2S_0721/A/1206:1208,
1/A/1691:1692		Single bulged G
homologous
IL_4V88_442
NA
IL_6W2S_0731/A/1214:1217,
1/A/1681:1685		C-loop
homologous
IL_4V88_443
NA
IL_6W2S_0741/A/1230:1232,
1/A/1526:1528		Isolated non-canonical cWW pair
homologous
IL_4V88_444
NA
IL_6W2S_0751/A/1235:1236,
1/A/1521:1523		Minor groove platform
homologous
IL_4V88_445
NA
IL_6W2S_0761/A/1270:1272,
1/A/1510:1512		Isolated non-canonical cWW pair
homologous
IL_4V88_446
NA
IL_6W2S_0771/A/1281:1290,
1/A/1309:1316		No text annotation
geometric
IL_8P9A_470
IL_28304.1
IL_6W2S_0781/A/1291:1294,
1/A/1305:1308		No text annotation
IL_6W2S_0791/A/1325:1327,
1/A/1502:1503		Single bulged U
homologous
IL_4V88_449
NA
IL_6W2S_0801/A/1329:1333,
1/A/1498:1500		Isolated cWS basepair
geometric
IL_4V88_450
NA
IL_6W2S_1171/A/1329:1335,
1/A/1492:1500		No text annotation
homologous
IL_8P9A_439
IL_86012.1
IL_6W2S_0811/A/1333:1335,
1/A/1492:1498		Minor groove platform with extra cWW
homologous
IL_4V88_451
NA
IL_6W2S_0821/A/1337:1338,
1/A/1488:1490		Single bulged A
homologous
IL_4V88_452
NA
IL_6W2S_0831/A/1347:1349,
1/A/1380:1382		Isolated cWH basepair
homologous
IL_4V88_453
NA
IL_6W2S_0841/A/1363:1365,
1/A/1374:1375		Minor groove platform
homologous
IL_8C3A_460
NA
IL_6W2S_0851/A/1395:1399,
1/A/1447:1450		Tandem non-canonical cWW pairs
geometric
IL_5EW4_002
IL_85033.2
IL_6W2S_0861/A/1402:1405,
1/A/1441:1444		Minor groove platform
homologous
IL_4V88_456
NA
IL_6W2S_0871/A/1412:1414,
1/A/1426:1429		Single bulged G, near cWW
geometric
IL_6CZR_128
NA
IL_6W2S_0881/A/1537:1539,
1/A/1594:1596		Isolated non-canonical cWW pair
geometric
IL_3GM7_006
IL_87907.2
IL_6W2S_1191/A/1541:1550,
1/A/1582:1592		No text annotation
IL_6W2S_0891/A/1550:1558,
1/A/1577:1582		180 degree turn
geometric
IL_5J7L_055
IL_11344.2
IL_6W2S_0901/A/1560:1562,
1/A/1573:1575		Isolated non-canonical cWW pair
geometric
IL_5AOX_001
IL_87907.2
IL_6W2S_0911/A/1604:1610,
1/A/1629:1635		No text annotation
homologous
IL_8C3A_469
NA
IL_6W2S_0921/A/1700:1702,
1/A/1833:1836		No text annotation
homologous
IL_4V88_463
NA
IL_6W2S_0931/A/1702:1705,
1/A/1829:1833		No text annotation
geometric
IL_4V88_464
NA
IL_6W2S_0941/A/1706:1708,
1/A/1826:1828		Isolated non-canonical cWW pair
homologous
IL_4V88_465
NA
IL_6W2S_0951/A/1708:1711,
1/A/1822:1826		No text annotation
geometric
IL_6AZ4_001
NA
IL_6W2S_0961/A/1714:1716,
1/A/1817:1819		Isolated non-canonical cWW pair
homologous
IL_4V88_467
NA
IL_6W2S_0971/A/1717:1720,
1/A/1813:1816		Double sheared
homologous
IL_4V88_468
NA
IL_6W2S_1231/A/1717:1722,
1/A/1812:1816		No text annotation
IL_6W2S_0981/A/1720:1723,
1/A/1811:1813		Isolated cWS basepair
geometric
IL_4TS2_003
NA
IL_6W2S_0991/A/1729:1731,
1/A/1803:1805		Isolated non-canonical cWW pair
homologous
IL_4V88_470
NA
IL_6W2S_1001/A/1733:1736,
1/A/1798:1801		Double sheared
homologous
IL_4V88_471
NA
IL_6W2S_1011/A/1739:1741,
1/A/1793:1795		Isolated non-canonical cWW pair
geometric
IL_1YZ9_002
IL_87907.2
IL_6W2S_1021/A/1742:1746,
1/A/1788:1792		Triple sheared
homologous
IL_4V88_474
NA
IL_6W2S_1241/A/1750:1752,
1/A/1780:1784		No text annotation
IL_6W2S_1041/A/1754:1756,
1/A/1777:1778		Single stack bend
geometric
IL_4WF9_089
IL_26793.1
IL_6W2S_1051/A/1756:1757,
1/A/1775:1777		No text annotation

Problematic loops

#loop idProblemSequence
IL_6W2S_106No text annotation
IL_6W2S_031No text annotation
IL_6W2S_050Tandem non-canonical cWW pairs
IL_6W2S_055No text annotation
IL_6W2S_059Tandem non-canonical cWW pairs
IL_6W2S_113Triple non-canonical cWW pairs
IL_6W2S_114Tandem non-canonical cWW pairs
IL_6W2S_115Partly complementary
IL_6W2S_116No text annotation
IL_6W2S_118Tandem non-canonical cWW pairs
IL_6W2S_120No text annotation
IL_6W2S_103No text annotation
IL_6W2S_121No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6W2S_0011/0/384:390,
1/0/401:408,
1/0/435:437		No text annotation
J3_6W2S_0171/0/384:392,
1/0/399:408,
1/0/435:437		No text annotation
J3_6W2S_0181/0/521:530,
1/0/547:554,
1/0/566:572		No text annotation
J3_6W2S_0021/0/523:530,
1/0/547:554,
1/0/566:570		No text annotation
J3_6W2S_0031/0/619:623,
1/0/642:647,
1/0/656:663		No text annotation
J3_6W2S_0041/A/40:41,
1/A/481:487,
1/A/512:514		No text annotation
geometric
J3_8C3A_082
NA
J3_6W2S_0191/A/40:47,
1/A/479:487,
1/A/512:514		No text annotation
homologous
J3_8C3A_083
NA
J3_6W2S_0051/A/682:685,
1/A/917:922,
1/A/1022:1023		No text annotation
J3_6W2S_0201/A/682:685,
1/A/917:923,
1/A/1019:1023		No text annotation
J3_6W2S_0061/A/816:819,
1/A/829:831,
1/A/843:848		No text annotation
homologous
J3_4V88_032
NA
J3_6W2S_0071/A/938:941,
1/A/985:993,
1/A/1000:1004		No text annotation
homologous
J3_4V88_033
NA
J3_6W2S_0081/A/1094:1096,
1/A/1136:1140,
1/A/1147:1151		No text annotation
J3_6W2S_0091/A/1218:1221,
1/A/1645:1651,
1/A/1673:1680		No text annotation
homologous
J3_4V88_035
NA
J3_6W2S_0211/A/1225:1228,
1/A/1530:1532,
1/A/1638:1641		No text annotation
homologous
J3_8C3A_039
NA
J3_6W2S_0111/A/1237:1244,
1/A/1255:1266,
1/A/1516:1520		No text annotation
homologous
J3_8C3A_040
NA
J3_6W2S_0121/A/1272:1277,
1/A/1320:1324,
1/A/1504:1510		No text annotation
homologous
J3_4V88_038
NA
J3_6W2S_0131/A/1340:1345,
1/A/1384:1389,
1/A/1481:1486		No text annotation
homologous
J3_8P9A_080
J3_99563.1
J3_6W2S_0141/A/1350:1351,
1/A/1360:1363,
1/A/1375:1379		No text annotation
homologous
J3_8C3A_085
NA
J3_6W2S_0151/A/1391:1395,
1/A/1450:1456,
1/A/1470:1479		No text annotation
J3_6W2S_0161/A/1532:1536,
1/A/1597:1604,
1/A/1635:1638		No text annotation
homologous
J3_8C3A_044
NA
J4_6W2S_0011/A/98:106,
1/A/355:357,
1/A/405:409,
1/A/431:432		No text annotation
homologous
J4_8C3A_021
NA
J4_6W2S_0021/A/671:673,
1/A/1032:1037,
1/A/1078:1089,
1/A/1160:1161		No text annotation
homologous
J4_8C3A_022
NA
J5_6W2S_0081/A/30:34,
1/A/521:527,
1/A/558:563,
1/A/592:595,
1/A/641:644		No text annotation
homologous
J5_8CRE_018
J5_80702.1
J5_6W2S_0091/A/30:34,
1/A/521:527,
1/A/558:565,
1/A/585:595,
1/A/641:644		No text annotation
J5_6W2S_0031/A/53:56,
1/A/89:96,
1/A/434:436,
1/A/457:459,
1/A/470:474		No text annotation
homologous
J5_8C3A_020
NA
J5_6W2S_0041/A/123:130,
1/A/182:185,
1/A/214:215,
1/A/310:312,
1/A/337:341		No text annotation
J5_6W2S_0051/A/123:144,
1/A/175:185,
1/A/214:215,
1/A/310:312,
1/A/337:341		No text annotation
J5_6W2S_0061/A/123:144,
1/A/175:185,
1/A/214:215,
1/A/310:314,
1/A/336:341		No text annotation
J5_6W2S_0101/A/685:690,
1/A/736:744,
1/A/797:800,
1/A/865:874,
1/A/912:917		No text annotation

Problematic loops

#loop idProblemSequence
J3_6W2S_010No text annotation
J5_6W2S_001No text annotation
J5_6W2S_002No text annotation
J5_6W2S_007No text annotation

Coloring options:
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