RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6WDR_0011/2/7:17No text annotation
homologous
HL_4V88_186
NA
HL_6WDR_0021/2/70:81No text annotation
homologous
HL_4V88_187
NA
HL_6WDR_0421/2/416:424No text annotation
HL_6WDR_0031/2/417:423GNRA related
geometric
HL_4V88_188
NA
HL_6WDR_0051/2/506:513T-loop with 1 bulged base
homologous
HL_4V88_191
NA
HL_6WDR_0071/2/593:601GNRA related
homologous
HL_4V88_193
NA
HL_6WDR_0081/2/631:636No text annotation
homologous
HL_4V88_194
NA
HL_6WDR_0091/2/656:667No text annotation
homologous
HL_4V88_195
NA
HL_6WDR_0101/2/677:682UNCG
homologous
HL_4V88_196
NA
HL_6WDR_0111/2/713:719No text annotation
homologous
HL_4V88_197
NA
HL_6WDR_0361/2/781:796No text annotation
HL_6WDR_0131/2/783:795No text annotation
geometric
HL_4V88_199
NA
HL_6WDR_0141/2/815:835No text annotation
HL_6WDR_0431/2/824:847No text annotation
HL_6WDR_0381/2/911:932No text annotation
HL_6WDR_0391/2/1010:1018No text annotation
homologous
HL_8C3A_208
NA
HL_6WDR_0181/2/1023:1029No text annotation
homologous
HL_4V88_204
NA
HL_6WDR_0201/2/1137:1142GNRA
homologous
HL_4V88_207
NA
HL_6WDR_0221/2/1236:1241GNRA
homologous
HL_4V88_210
NA
HL_6WDR_0231/2/1273:1278GNRA
homologous
HL_4V88_211
NA
HL_6WDR_0241/2/1340:1349No text annotation
homologous
HL_4V88_212
NA
HL_6WDR_0261/2/1448:1453GNRA
homologous
HL_4V88_214
NA
HL_6WDR_0271/2/1461:1468No text annotation
homologous
HL_4V88_215
NA
HL_6WDR_0291/2/1548:1554GNRA related
geometric
HL_5J7L_179
NA
HL_6WDR_0301/2/1653:1658GNRA
homologous
HL_4V88_218
NA
HL_6WDR_0311/2/1701:1714No text annotation
HL_6WDR_0321/2/1741:1759No text annotation

Problematic loops

#loop idProblemSequence
HL_6WDR_034tRNA D-loop
HL_6WDR_004No text annotation
HL_6WDR_006Mini UNCG
HL_6WDR_035No text annotation
HL_6WDR_012No text annotation
HL_6WDR_037No text annotation
HL_6WDR_015No text annotation
HL_6WDR_016No text annotation
HL_6WDR_017No text annotation
HL_6WDR_019Pseudoknot geometry
HL_6WDR_021No text annotation
HL_6WDR_040No text annotation
HL_6WDR_025No text annotation
HL_6WDR_041No text annotation
HL_6WDR_028No text annotation
HL_6WDR_033No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6WDR_0011/2/24:26,
1/2/863:864		Single bulged C
homologous
IL_4V88_384
NA
IL_6WDR_0021/2/35:37,
1/2/734:736		Isolated non-canonical cWW pair
homologous
IL_4V88_385
NA
IL_6WDR_0031/2/37:41,
1/2/729:734		Triple sheared related
geometric
IL_4V88_386
NA
IL_6WDR_0041/2/42:50,
1/2/692:696		No text annotation
IL_6WDR_0051/2/50:52,
1/2/691:692		Minor groove platform
geometric
IL_4LFB_004
IL_34520.3
IL_6WDR_0061/2/58:63,
1/2/87:89		No text annotation
homologous
IL_4V88_389
NA
IL_6WDR_0071/2/64:69,
1/2/82:86		No text annotation
homologous
IL_4V88_390
NA
IL_6WDR_0081/2/109:112,
1/2/565:568		Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA
IL_6WDR_0091/2/113:116,
1/2/563:564		Multiple bulged bases
homologous
IL_4V88_392
NA
IL_6WDR_0101/2/117:122,
1/2/558:562		No text annotation
homologous
IL_4V88_393
NA
IL_6WDR_0111/2/143:149,
1/2/428:435		tWH-tWH-tHW-tHW
homologous
IL_4V88_394
NA
IL_6WDR_0141/2/467:469,
1/2/522:526		Major groove platform with extra cWW
geometric
IL_4V88_397
NA
IL_6WDR_0151/2/469:471,
1/2/520:522		Isolated non-canonical cWW pair
homologous
IL_4V88_398
NA
IL_6WDR_0161/2/476:506,
1/2/513:515		No text annotation
IL_6WDR_0171/2/528:530,
1/2/551:552		Single bulged A
homologous
IL_4V88_399
NA
IL_6WDR_0181/2/533:536,
1/2/546:548		No text annotation
homologous
IL_4V88_400
NA
IL_6WDR_0191/2/538:539,
1/2/542:544		Single bulged U
geometric
IL_4V88_401
NA
IL_6WDR_0201/2/574:579,
1/2/611:618		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_6WDR_0811/2/581:586,
1/2/608:609		No text annotation
homologous
IL_8P9A_392
IL_01372.1
IL_6WDR_0221/2/626:628,
1/2/639:644		No text annotation
homologous
IL_4V88_404
NA
IL_6WDR_0231/2/652:654,
1/2/669:671		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_6WDR_0241/2/674:676,
1/2/683:685		Isolated near basepair
homologous
IL_4V88_406
NA
IL_6WDR_0251/2/702:704,
1/2/726:727		Single bulged U
homologous
IL_4V88_407
NA
IL_6WDR_0261/2/706:710,
1/2/723:724		C-loop
geometric
IL_5J7L_018
NA
IL_6WDR_0701/2/706:711,
1/2/721:724		C-loop with extra cWW pair
geometric
IL_4V88_408
NA
IL_6WDR_0271/2/710:711,
1/2/721:723		Single bulged G
geometric
IL_5J7L_019
NA
IL_6WDR_0281/2/742:743,
1/2/771:773		Single stack bend
geometric
IL_7RQB_005
NA
IL_6WDR_0301/2/777:779,
1/2/799:806		Isolated tHS basepair with bulges
geometric
IL_7RQB_082
NA
IL_6WDR_0311/2/780:781,
1/2/796:798		Minor groove platform
geometric
IL_4V88_388
NA
IL_6WDR_0321/2/781:783,
1/2/795:796		Minor groove platform
geometric
IL_4V88_412
NA
IL_6WDR_0721/2/813:820,
1/2/850:851		SSU/LSU pseudoknot
homologous
IL_8P9A_402
IL_11411.1
IL_6WDR_0331/2/813:815,
1/2/835:851		No text annotation
IL_6WDR_0731/2/820:822,
1/2/849:850		Single bulged U
homologous
IL_8C3A_424
NA
IL_6WDR_0341/2/878:885,
1/2/1256:1258		No text annotation
IL_6WDR_0351/2/909:911,
1/2/932:934		Isolated non-canonical cWW pair
geometric
IL_4V88_419
NA
IL_6WDR_0381/2/992:993,
1/2/1048:1051		Major groove minor groove platform; mini C-loop
homologous
IL_4V88_423
NA
IL_6WDR_0391/2/994:996,
1/2/1045:1047		Isolated non-canonical cWW pair
homologous
IL_4V88_424
NA
IL_6WDR_0401/2/997:1005,
1/2/1037:1044		No text annotation
homologous
IL_4V88_425
NA
IL_6WDR_0421/2/1113:1116,
1/2/1157:1161		Tandem non-canonical cWW pairs
homologous
IL_4V88_429
NA
IL_6WDR_0431/2/1117:1120,
1/2/1153:1156		Tandem non-canonical cWW pairs
geometric
IL_4V88_430
NA
IL_6WDR_0441/2/1120:1124,
1/2/1150:1153		Tandem non-canonical cWW pairs
homologous
IL_4V88_431
NA
IL_6WDR_0451/2/1127:1136,
1/2/1143:1147		No text annotation
IL_6WDR_0461/2/1186:1188,
1/2/1247:1253		No text annotation
homologous
IL_4V88_437
NA
IL_6WDR_0751/2/1193:1196,
1/2/1226:1229		Tandem non-canonical cWW pairs
homologous
IL_8P9A_426
IL_15225.2
IL_6WDR_0481/2/1203:1205,
1/2/1218:1219		Single bulged U
geometric
IL_2A64_002
IL_97561.5
IL_6WDR_0491/2/1262:1270,
1/2/1281:1287		No text annotation
IL_6WDR_0761/2/1262:1272,
1/2/1279:1287		No text annotation
IL_6WDR_0501/2/1270:1273,
1/2/1278:1281		Tandem non-canonical cWW pairs
geometric
IL_1D4R_001
IL_15225.2
IL_6WDR_0521/2/1442:1444,
1/2/1475:1477		Isolated cWH basepair
geometric
IL_6IA2_003
IL_10892.2
IL_6WDR_0531/2/1491:1494,
1/2/1535:1537		Isolated non-canonical cWW pair
geometric
IL_4V88_455
NA
IL_6WDR_0831/2/1494:1500,
1/2/1529:1535		No text annotation
IL_6WDR_0771/2/1541:1543,
1/2/1559:1564		Major groove platform; stack outside cWW
geometric
IL_4V88_458
NA
IL_6WDR_0781/2/1630:1646,
1/2/1665:1681		No text annotation
IL_6WDR_0571/2/1647:1653,
1/2/1658:1664		No text annotation
IL_6WDR_0601/2/1817:1819,
1/2/1886:1888		Isolated non-canonical cWW pair
homologous
IL_4V88_470
NA
IL_6WDR_0611/2/1821:1824,
1/2/1881:1884		Double sheared
geometric
IL_4V88_471
NA
IL_6WDR_0621/2/1824:1826,
1/2/1879:1881		Isolated non-canonical cWW pair
homologous
IL_4V88_472
NA
IL_6WDR_0631/2/1827:1830,
1/2/1875:1878		Tandem non-canonical cWW pairs
homologous
IL_4V88_473
NA
IL_6WDR_0641/2/1830:1834,
1/2/1871:1875		Triple sheared
geometric
IL_4V88_474
NA

Problematic loops

#loop idProblemSequence
IL_6WDR_066No text annotation
IL_6WDR_012Isolated cWH basepair
IL_6WDR_013Double sheared
IL_6WDR_021No text annotation
IL_6WDR_067No text annotation
IL_6WDR_068Tandem non-canonical cWW pairs
IL_6WDR_069Tandem non-canonical cWW pairs
IL_6WDR_082Single bulged A
IL_6WDR_071Isolated non-canonical cWW pair
IL_6WDR_029Triple non-canonical cWW pairs
IL_6WDR_036tSH-tHW-tHS-cWW
IL_6WDR_037No text annotation
IL_6WDR_041Isolated non-canonical cWW pair
IL_6WDR_074Partly complementary
IL_6WDR_047No text annotation
IL_6WDR_051No text annotation
IL_6WDR_054No text annotation
IL_6WDR_055No text annotation
IL_6WDR_056No text annotation
IL_6WDR_058No text annotation
IL_6WDR_084No text annotation
IL_6WDR_079No text annotation
IL_6WDR_059No text annotation
IL_6WDR_080Triple sheared
IL_6WDR_065No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6WDR_0071/2/37:52,
1/2/691:702,
1/2/727:734		No text annotation
J3_6WDR_0011/2/41:42,
1/2/696:702,
1/2/727:729		No text annotation
homologous
J3_8P9A_068
J3_58657.1
J3_6WDR_0021/2/1006:1009,
1/2/1019:1021,
1/2/1031:1036		No text annotation
geometric
J3_4V88_032
NA
J3_6WDR_0031/2/1189:1191,
1/2/1231:1235,
1/2/1242:1246		No text annotation
homologous
J3_4V88_034
NA
J3_6WDR_0141/2/1307:1318,
1/2/1731:1739,
1/2/1761:1775		No text annotation
J3_6WDR_0041/2/1320:1323,
1/2/1620:1622,
1/2/1726:1729		No text annotation
homologous
J3_8C3A_039
NA
J3_6WDR_0101/2/1445:1446,
1/2/1455:1460,
1/2/1469:1474		No text annotation
J3_6WDR_0061/2/1488:1490,
1/2/1538:1541,
1/2/1564:1567		No text annotation
homologous
J3_4V88_040
NA
J3_6WDR_0151/2/1488:1490,
1/2/1538:1543,
1/2/1559:1567		No text annotation
homologous
J3_8CRE_085
J3_88233.1
J3_6WDR_0131/2/1622:1626,
1/2/1685:1700,
1/2/1715:1726		No text annotation
J4_6WDR_0041/2/99:107,
1/2/570:572,
1/2/620:624,
1/2/646:647		No text annotation
homologous
J4_8P9A_021
J4_15241.2
J4_6WDR_0021/2/878:898,
1/2/1107:1112,
1/2/1162:1185,
1/2/1254:1258		No text annotation
J4_6WDR_0031/2/885:898,
1/2/1107:1112,
1/2/1162:1185,
1/2/1254:1256		No text annotation
J5_6WDR_0061/2/29:35,
1/2/736:742,
1/2/773:779,
1/2/799:809,
1/2/855:860		No text annotation
J5_6WDR_0021/2/54:57,
1/2/90:97,
1/2/649:651,
1/2/672:674,
1/2/685:689		No text annotation
homologous
J5_8C3A_020
NA
J5_6WDR_0031/2/124:149,
1/2/428:445,
1/2/466:467,
1/2/526:528,
1/2/552:556		No text annotation
J5_6WDR_0041/2/124:149,
1/2/428:445,
1/2/466:467,
1/2/526:530,
1/2/551:556		No text annotation
J5_6WDR_0071/2/899:904,
1/2/939:945,
1/2/985:993,
1/2/1048:1063,
1/2/1100:1106		No text annotation
J6_6WDR_0011/2/1320:1340,
1/2/1349:1374,
1/2/1413:1440,
1/2/1479:1484,
1/2/1571:1622,
1/2/1726:1729		No text annotation

Problematic loops

#loop idProblemSequence
J3_6WDR_008No text annotation
J3_6WDR_009No text annotation
J3_6WDR_005No text annotation
J3_6WDR_011No text annotation
J3_6WDR_012No text annotation
J4_6WDR_001No text annotation
J5_6WDR_001No text annotation
J5_6WDR_005No text annotation

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