RNA 3D Hub //

7JQC Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_7JQC_0011/A/7:17No text annotation
homologous
HL_4V88_186
NA
HL_7JQC_0021/A/69:80No text annotation
geometric
HL_2ZZM_002
NA
HL_7JQC_0031/A/156:162GNRA related
homologous
HL_4V88_188
NA
HL_7JQC_0051/A/288:295T-loop with 1 bulged base
geometric
HL_4V88_191
NA
HL_7JQC_0071/A/377:387No text annotation
HL_7JQC_0081/A/416:421No text annotation
homologous
HL_4V88_194
NA
HL_7JQC_0091/A/441:452No text annotation
homologous
HL_4V88_195
NA
HL_7JQC_0101/A/462:467UNCG
homologous
HL_4V88_196
NA
HL_7JQC_0111/A/498:504No text annotation
homologous
HL_4V88_197
NA
HL_7JQC_0131/A/569:581No text annotation
geometric
HL_4V88_199
NA
HL_7JQC_0141/A/618:623GNRA variation
homologous
HL_4V88_200
NA
HL_7JQC_0161/A/820:828No text annotation
homologous
HL_4V88_203
NA
HL_7JQC_0181/A/884:902No text annotation
HL_7JQC_0191/A/957:966No text annotation
homologous
HL_4V88_206
NA
HL_7JQC_0201/A/994:999GNRA
homologous
HL_4V88_207
NA
HL_7JQC_0211/A/1054:1064No text annotation
homologous
HL_4V88_208
NA
HL_7JQC_0221/A/1114:1119No text annotation
HL_7JQC_0231/A/1141:1146GNRA
homologous
HL_4V88_210
NA
HL_7JQC_0241/A/1178:1183GNRA
homologous
HL_4V88_211
NA
HL_7JQC_0261/A/1353:1358GNRA
homologous
HL_4V88_214
NA
HL_7JQC_0271/A/1366:1373No text annotation
homologous
HL_4V88_215
NA
HL_7JQC_0291/A/1460:1466GNRA
homologous
HL_4V88_217
NA
HL_7JQC_0321/A/1658:1666No text annotation
homologous
HL_4V88_220
NA
HL_7JQC_0341/A/1847:1852GNRA variation
homologous
HL_4V88_222
NA
HL_7JQC_0421/i/6049:6078No text annotation
HL_7JQC_0351/i/6051:6076No text annotation
HL_7JQC_0361/i/6140:6147No text annotation

Problematic loops

#loop idProblemSequence
HL_7JQC_004GNRA with extra cWW
HL_7JQC_037GNRA
HL_7JQC_006No text annotation
HL_7JQC_012GNRA
HL_7JQC_015No text annotation
HL_7JQC_017No text annotation
HL_7JQC_038No text annotation
HL_7JQC_039No text annotation
HL_7JQC_040No text annotation
HL_7JQC_025No text annotation
HL_7JQC_041tRNA anticodon loop
HL_7JQC_028No text annotation
HL_7JQC_030GNRA
HL_7JQC_031No text annotation
HL_7JQC_033No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_7JQC_0011/A/23:25,
1/A/649:651		Isolated non-canonical cWW pair
geometric
IL_4M4O_001
NA
IL_7JQC_0021/A/34:36,
1/A/519:521		Isolated non-canonical cWW pair
homologous
IL_4V88_385
NA
IL_7JQC_0031/A/37:40,
1/A/514:518		Double sheared
geometric
IL_4WF9_016
IL_58355.1
IL_7JQC_0041/A/41:47,
1/A/479:481		No text annotation
geometric
IL_4V88_387
NA
IL_7JQC_0051/A/49:51,
1/A/476:477		Minor groove platform
homologous
IL_4V88_388
NA
IL_7JQC_0061/A/57:62,
1/A/86:88		No text annotation
homologous
IL_4V88_389
NA
IL_7JQC_0071/A/63:68,
1/A/81:85		No text annotation
homologous
IL_4V88_390
NA
IL_7JQC_0081/A/108:110,
1/A/351:353		Isolated non-canonical cWW pair
geometric
IL_1ZX7_004
NA
IL_7JQC_0091/A/110:112,
1/A/349:351		No text annotation
geometric
IL_1N33_070
NA
IL_7JQC_0871/A/110:115,
1/A/348:351		Tandem non-canonical cWW pairs
homologous
IL_8P9A_380
IL_71194.1
IL_7JQC_0101/A/112:115,
1/A/348:349		Major groove intercalation
geometric
IL_4WF9_071
IL_78536.1
IL_7JQC_0111/A/116:121,
1/A/343:347		No text annotation
homologous
IL_4V88_393
NA
IL_7JQC_0131/A/145:151,
1/A/167:174		tWH-tWH-tHW-tHW
homologous
IL_4V88_394
NA
IL_7JQC_0141/A/152:154,
1/A/164:166		Isolated non-canonical cWW contact
homologous
IL_4V88_395
NA
IL_7JQC_0151/A/188:192,
1/A/207:211		Double sheared with non-canonical cWW
geometric
IL_4WFL_001
IL_87767.1
IL_7JQC_0161/A/216:219,
1/A/302:309		Tandem non-canonical cWW pairs
geometric
IL_1GID_008
NA
IL_7JQC_0181/A/312:314,
1/A/336:337		Single bulged A
homologous
IL_4V88_399
NA
IL_7JQC_0191/A/317:319,
1/A/332:333		Single stack bend
geometric
IL_5TBW_009
NA
IL_7JQC_0201/A/359:364,
1/A/396:403		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_7JQC_0211/A/366:371,
1/A/393:394		No text annotation
geometric
IL_5Y58_001
IL_45649.1
IL_7JQC_0221/A/411:413,
1/A/424:429		No text annotation
homologous
IL_4V88_404
NA
IL_7JQC_0231/A/437:439,
1/A/454:456		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_7JQC_0241/A/459:461,
1/A/468:470		Isolated near basepair
homologous
IL_4V88_406
NA
IL_7JQC_0251/A/487:489,
1/A/511:512		Single bulged U
homologous
IL_4V88_407
NA
IL_7JQC_0991/A/491:495,
1/A/508:509		C-loop
homologous
IL_8P9A_397
IL_26900.1
IL_7JQC_1001/A/495:496,
1/A/506:508		Single bulged G
homologous
IL_8P9A_398
IL_28408.1
IL_7JQC_1011/A/535:538,
1/A/545:549		No text annotation
IL_7JQC_0291/A/537:539,
1/A/544:547		No text annotation
IL_7JQC_0301/A/563:565,
1/A/585:592		No text annotation
homologous
IL_8C3A_420
NA
IL_7JQC_0891/A/563:569,
1/A/581:592		No text annotation
IL_7JQC_0311/A/566:569,
1/A/581:584		tSH-tHW
geometric
IL_5UNE_005
NA
IL_7JQC_0321/A/599:608,
1/A/635:637		No text annotation
IL_7JQC_0331/A/611:617,
1/A/624:632		Kink-turn related
homologous
IL_4V88_415
NA
IL_7JQC_0341/A/663:665,
1/A/1162:1164		Isolated non-canonical cWW pair
geometric
IL_1Y27_001
NA
IL_7JQC_0351/A/665:671,
1/A/1161:1162		No text annotation
homologous
IL_4V88_416
NA
IL_7JQC_0361/A/673:675,
1/A/1030:1032		Isolated non-canonical cWW pair
homologous
IL_4V88_417
NA
IL_7JQC_0371/A/676:680,
1/A/1025:1029		tSH-tHW-tHS
homologous
IL_4V88_418
NA
IL_7JQC_0381/A/802:803,
1/A/860:863		Major groove minor groove platform; mini C-loop
homologous
IL_4V88_423
NA
IL_7JQC_0391/A/805:807,
1/A/856:858		Isolated non-canonical cWW pair
homologous
IL_4V88_424
NA
IL_7JQC_1021/A/807:815,
1/A/849:856		No text annotation
homologous
IL_8CRE_430
IL_59049.2
IL_7JQC_0411/A/874:876,
1/A/910:912		Isolated non-canonical cWW pair
geometric
IL_5Y85_006
IL_01003.1
IL_7JQC_0431/A/922:923,
1/A/1019:1022		Major groove platform; stack outside cWW
geometric
IL_4V88_428
NA
IL_7JQC_0921/A/925:926,
1/A/1015:1017		Single bulged U
geometric
IL_6UFH_004
NA
IL_7JQC_0931/A/928:931,
1/A/1010:1013		Tandem non-canonical cWW pairs
homologous
IL_8P9A_419
IL_15225.1
IL_7JQC_0461/A/931:935,
1/A/1007:1010		Tandem non-canonical cWW pairs
geometric
IL_4V88_431
NA
IL_7JQC_0471/A/942:945,
1/A/981:984		Tandem non-canonical cWW pairs
homologous
IL_4V88_432
NA
IL_7JQC_0481/A/952:956,
1/A/967:974		Kink-turn
homologous
IL_4V88_434
NA
IL_7JQC_0491/A/1042:1047,
1/A/1071:1073		Other IL
geometric
IL_4V88_435
NA
IL_7JQC_0501/A/1047:1051,
1/A/1067:1071		tSH-tHW-tHS
homologous
IL_4V88_436
NA
IL_7JQC_0941/A/1091:1093,
1/A/1152:1158		No text annotation
homologous
IL_8P9A_425
IL_82706.2
IL_7JQC_0521/A/1098:1101,
1/A/1131:1134		Tandem non-canonical cWW pairs
geometric
IL_4V88_438
NA
IL_7JQC_0531/A/1101:1103,
1/A/1129:1131		Isolated non-canonical cWW pair
geometric
IL_4V9F_105
IL_01003.1
IL_7JQC_1031/A/1108:1110,
1/A/1123:1124		Minor groove platform
geometric
IL_8P9A_401
IL_34520.1
IL_7JQC_0551/A/1168:1175,
1/A/1186:1191		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4V88_440
NA
IL_7JQC_1041/A/1203:1204,
1/A/1694:1696		Single bulged A
homologous
IL_8CRE_443
IL_14190.1
IL_7JQC_0571/A/1206:1208,
1/A/1691:1692		Single bulged G
homologous
IL_4V88_442
NA
IL_7JQC_1051/A/1214:1217,
1/A/1681:1685		C-loop
homologous
IL_8P9A_431
IL_63596.12
IL_7JQC_0601/A/1325:1327,
1/A/1502:1503		Single bulged U
homologous
IL_4V88_449
NA
IL_7JQC_0611/A/1329:1333,
1/A/1498:1500		Isolated cWS basepair
geometric
IL_4LFB_044
IL_82453.1
IL_7JQC_0961/A/1329:1335,
1/A/1492:1500		No text annotation
homologous
IL_8P9A_439
IL_99893.1
IL_7JQC_0621/A/1333:1335,
1/A/1492:1498		Minor groove platform with extra cWW
homologous
IL_4V88_451
NA
IL_7JQC_0631/A/1337:1338,
1/A/1488:1490		Single bulged A
homologous
IL_4V88_452
NA
IL_7JQC_0641/A/1347:1349,
1/A/1380:1382		Isolated cWH basepair
homologous
IL_4V88_453
NA
IL_7JQC_0651/A/1363:1365,
1/A/1374:1375		Minor groove platform
geometric
IL_5T83_003
NA
IL_7JQC_0661/A/1395:1399,
1/A/1447:1450		Tandem non-canonical cWW pairs
geometric
IL_5EW4_002
IL_71194.1
IL_7JQC_1061/A/1402:1405,
1/A/1441:1444		No text annotation
homologous
IL_8CRE_481
IL_78800.2
IL_7JQC_0681/A/1412:1413,
1/A/1427:1429		No text annotation
IL_7JQC_0691/A/1550:1558,
1/A/1577:1582		180 degree turn
geometric
IL_5J7L_055
NA
IL_7JQC_0701/A/1560:1562,
1/A/1573:1575		Isolated non-canonical cWW pair
geometric
IL_4E48_004
IL_01003.1
IL_7JQC_0711/A/1700:1702,
1/A/1833:1836		No text annotation
homologous
IL_4V88_463
NA
IL_7JQC_0721/A/1702:1705,
1/A/1829:1833		No text annotation
geometric
IL_4V88_464
NA
IL_7JQC_0731/A/1706:1708,
1/A/1826:1828		Isolated non-canonical cWW pair
homologous
IL_4V88_465
NA
IL_7JQC_0741/A/1708:1711,
1/A/1822:1826		No text annotation
geometric
IL_1DUQ_001
NA
IL_7JQC_0781/A/1729:1731,
1/A/1803:1805		Isolated non-canonical cWW pair
homologous
IL_4V88_470
NA
IL_7JQC_0791/A/1733:1736,
1/A/1798:1801		Double sheared
homologous
IL_4V88_471
NA
IL_7JQC_0801/A/1739:1741,
1/A/1793:1795		Isolated non-canonical cWW pair
geometric
IL_4E48_001
IL_01003.1
IL_7JQC_0811/A/1742:1746,
1/A/1788:1792		Triple sheared
homologous
IL_4V88_474
NA
IL_7JQC_0981/i/6139:6140,
1/i/6147:6149		No text annotation

Problematic loops

#loop idProblemSequence
IL_7JQC_086No text annotation
IL_7JQC_012No text annotation
IL_7JQC_017No text annotation
IL_7JQC_026C-loop with extra cWW pair
IL_7JQC_027Single bulged A
IL_7JQC_028No text annotation
IL_7JQC_088Triple non-canonical cWW pairs
IL_7JQC_090No text annotation
IL_7JQC_040No text annotation
IL_7JQC_042Isolated non-canonical cWW pair
IL_7JQC_091No text annotation
IL_7JQC_044Tandem non-canonical cWW pairs
IL_7JQC_045No text annotation
IL_7JQC_051No text annotation
IL_7JQC_054No text annotation
IL_7JQC_056Isolated non-canonical cWW pair
IL_7JQC_095No text annotation
IL_7JQC_058Single stack bend
IL_7JQC_059Single stack bend
IL_7JQC_067No text annotation
IL_7JQC_097Isolated non-canonical cWW pair
IL_7JQC_075Tandem non-canonical cWW pairs
IL_7JQC_076Double sheared
IL_7JQC_077Single bulged U
IL_7JQC_082No text annotation
IL_7JQC_107No text annotation
IL_7JQC_083No text annotation
IL_7JQC_084No text annotation
IL_7JQC_085No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_7JQC_0011/A/40:41,
1/A/481:487,
1/A/512:514		No text annotation
geometric
J3_4V88_078
NA
J3_7JQC_0091/A/40:47,
1/A/479:487,
1/A/512:514		No text annotation
homologous
J3_8C3A_083
NA
J3_7JQC_0021/A/682:685,
1/A/917:922,
1/A/1022:1023		No text annotation
J3_7JQC_0101/A/682:685,
1/A/917:923,
1/A/1019:1023		No text annotation
J3_7JQC_0031/A/816:819,
1/A/829:831,
1/A/843:848		No text annotation
homologous
J3_4V88_032
NA
J3_7JQC_0041/A/938:941,
1/A/985:993,
1/A/1000:1004		No text annotation
homologous
J3_4V88_033
NA
J3_7JQC_0051/A/1094:1096,
1/A/1136:1140,
1/A/1147:1151		No text annotation
J3_7JQC_0061/A/1340:1345,
1/A/1384:1389,
1/A/1481:1486		No text annotation
homologous
J3_4V88_039
NA
J3_7JQC_0071/A/1350:1351,
1/A/1360:1363,
1/A/1375:1379		No text annotation
homologous
J3_8P9A_081
J3_76043.4
J3_7JQC_0081/A/1391:1395,
1/A/1450:1456,
1/A/1470:1479		No text annotation
J3_7JQC_0121/A/1532:1550,
1/A/1582:1611,
1/A/1628:1638		No text annotation
J4_7JQC_0041/A/98:106,
1/A/355:357,
1/A/405:409,
1/A/431:432		No text annotation
homologous
J4_8CRE_021
J4_15241.2
J4_7JQC_0021/A/671:673,
1/A/1032:1037,
1/A/1078:1089,
1/A/1160:1161		No text annotation
homologous
J4_8P9A_022
J4_14595.1
J4_7JQC_0031/A/1218:1267,
1/A/1516:1532,
1/A/1638:1651,
1/A/1673:1680		No text annotation
J5_7JQC_0011/A/30:34,
1/A/521:527,
1/A/558:563,
1/A/592:595,
1/A/641:644		No text annotation
homologous
J5_8C3A_018
NA
J5_7JQC_0021/A/30:34,
1/A/521:527,
1/A/558:569,
1/A/581:595,
1/A/641:644		No text annotation
J5_7JQC_0031/A/53:56,
1/A/89:96,
1/A/434:436,
1/A/457:461,
1/A/468:474		No text annotation
J5_7JQC_0041/A/123:130,
1/A/182:185,
1/A/214:215,
1/A/310:312,
1/A/337:341		No text annotation

Problematic loops

#loop idProblemSequence
J3_7JQC_011No text annotation
J4_7JQC_001No text annotation

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