RNA 3D Hub //

3JYV Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_3JYV_0361/7/13:22tRNA D-loop
geometric
HL_3TUP_001
HL_45175.1
HL_3JYV_0391/7/30:40No text annotation
homologous
HL_6GSK_218
HL_14063.2
HL_3JYV_0381/7/53:61T-loop with 2 stacked bulged bases
geometric
HL_5E81_213
NA
HL_3JYV_0011/A/7:17No text annotation
geometric
HL_4LFB_001
HL_73535.1
HL_3JYV_0021/A/75:83No text annotation
HL_3JYV_0031/A/154:160GNRA
geometric
HL_5D5L_001
HL_34789.4
HL_3JYV_0041/A/190:195UNCG
geometric
HL_4PMI_004
HL_61337.3
HL_3JYV_0051/A/230:235UNCG
geometric
HL_1I6U_001
HL_61337.3
HL_3JYV_0401/A/273:283No text annotation
HL_3JYV_0061/A/330:338GNRA related
geometric
HL_5J7L_006
NA
HL_3JYV_0071/A/368:373GNRA
geometric
HL_4FRG_002
HL_34789.4
HL_3JYV_0081/A/393:404No text annotation
HL_3JYV_0091/A/414:419UNCG
geometric
HL_5D5L_003
HL_61337.3
HL_3JYV_0101/A/450:456No text annotation
HL_3JYV_0111/A/491:496UNCG
geometric
HL_1NBS_006
HL_61337.3
HL_3JYV_0131/A/569:574GNRA variation
geometric
HL_5J7L_205
NA
HL_3JYV_0141/A/661:667GNRA
geometric
HL_6VMY_001
HL_34789.4
HL_3JYV_0151/A/724:730No text annotation
HL_3JYV_0161/A/752:758No text annotation
HL_3JYV_0411/A/775:781No text annotation
HL_3JYV_0181/A/818:824UNCG
geometric
HL_1I6U_001
HL_61337.3
HL_3JYV_0191/A/899:908No text annotation
geometric
HL_5J7L_015
NA
HL_3JYV_0201/A/936:941GNRA
geometric
HL_6CB3_006
HL_34789.4
HL_3JYV_0211/A/996:1006No text annotation
geometric
HL_5J7L_017
NA
HL_3JYV_0221/A/1052:1061No text annotation
HL_3JYV_0231/A/1081:1086GNRA
geometric
HL_8CRE_046
NA
HL_3JYV_0241/A/1118:1123GNRA
geometric
HL_6UFG_004
HL_34789.4
HL_3JYV_0251/A/1184:1193No text annotation
geometric
HL_4LFB_021
HL_97521.1
HL_3JYV_0261/A/1234:1243No text annotation
geometric
HL_8CRE_034
NA
HL_3JYV_0271/A/1293:1298GNRA
geometric
HL_4YAZ_003
HL_34789.4
HL_3JYV_0281/A/1306:1313T-loop related
geometric
HL_4LFB_025
HL_63894.2
HL_3JYV_0291/A/1356:1361GNRA
geometric
HL_4Y1M_004
HL_34789.4
HL_3JYV_0301/A/1393:1399GNRA
geometric
HL_6WPI_001
HL_34789.4
HL_3JYV_0421/A/1493:1510No text annotation
HL_3JYV_0321/A/1545:1562No text annotation
HL_3JYV_0331/A/1592:1600No text annotation
HL_3JYV_0341/A/1696:1701GNRA
geometric
HL_5J7L_004
NA
HL_3JYV_0351/A/1776:1781GNRA
geometric
HL_5J7L_031
NA

Problematic loops

No problematic loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_3JYV_0891/A/24:27,
1/A/599:601		Isolated non-canonical cWW pair
geometric
IL_4V83_235
IL_01003.3
IL_3JYV_0041/A/42:48,
1/A/431:433		No text annotation
geometric
IL_5J7L_003
NA
IL_3JYV_0051/A/50:52,
1/A/428:429		Minor groove platform
geometric
IL_4LFB_004
IL_34520.3
IL_3JYV_0071/A/109:112,
1/A/302:305		Tandem non-canonical cWW pairs
geometric
IL_4EYA_008
IL_65740.1
IL_3JYV_0901/A/113:116,
1/A/300:301		No text annotation
IL_3JYV_0911/A/117:122,
1/A/295:299		No text annotation
geometric
IL_8CRE_399
IL_31545.1
IL_3JYV_0111/A/142:149,
1/A/165:172		tWH-tWH-tHW-tHW
geometric
IL_5J7L_012
NA
IL_3JYV_0121/A/149:152,
1/A/162:165		No text annotation
geometric
IL_7R9F_001
IL_59580.1
IL_3JYV_0141/A/186:189,
1/A/196:199		Tandem non-canonical cWW pairs
geometric
IL_5LQO_002
IL_15225.2
IL_3JYV_0151/A/213:224,
1/A/243:252		No text annotation
IL_3JYV_0161/A/225:228,
1/A/237:242		No text annotation
IL_3JYV_0171/A/311:316,
1/A/348:355		Kink-turn with non-sequential stacking
geometric
IL_5J7L_014
NA
IL_3JYV_0181/A/318:323,
1/A/345:346		No text annotation
IL_3JYV_0191/A/364:365,
1/A/376:380		C-loop
geometric
IL_5J7L_016
NA
IL_3JYV_0201/A/389:391,
1/A/406:408		Isolated non-canonical cWW pair
geometric
IL_8PFQ_001
IL_01003.3
IL_3JYV_0211/A/411:413,
1/A/420:422		Isolated non-canonical cWW pair
geometric
IL_8PFQ_001
IL_01003.3
IL_3JYV_0221/A/439:441,
1/A/463:464		Single bulged U
geometric
IL_4LFB_014
IL_97561.3
IL_3JYV_0231/A/443:447,
1/A/460:461		C-loop
geometric
IL_4LFB_015
IL_26900.1
IL_3JYV_0241/A/447:448,
1/A/458:460		Single bulged G
geometric
IL_5J7L_019
NA
IL_3JYV_0921/A/481:482,
1/A/505:507		Single bulged A
geometric
IL_8CRE_019
NA
IL_3JYV_0301/A/550:559,
1/A/586:588		No text annotation
IL_3JYV_0311/A/562:568,
1/A/575:583		No text annotation
geometric
IL_8P9A_404
IL_52042.1
IL_3JYV_0931/A/614:615,
1/A/1103:1105		Single stack bend
geometric
IL_8CRE_038
NA
IL_3JYV_0321/A/616:622,
1/A/1101:1102		No text annotation
geometric
IL_6CZR_134
NA
IL_3JYV_0341/A/627:631,
1/A/967:971		tSH-tHW-tHS
geometric
IL_5J7L_027
NA
IL_3JYV_0941/A/646:653,
1/A/677:688		No text annotation
IL_3JYV_0371/A/657:658,
1/A/671:673		Single stack bend
geometric
IL_8CRE_012
NA
IL_3JYV_0381/A/658:659,
1/A/669:671		Single stack bend
geometric
IL_5J7L_032
NA
IL_3JYV_0391/A/718:720,
1/A/735:737		Isolated non-canonical cWW pair
geometric
IL_5VCI_001
IL_68118.3
IL_3JYV_0401/A/721:723,
1/A/731:734		No text annotation
geometric
IL_4V9F_053
IL_49140.1
IL_3JYV_0951/A/804:805,
1/A/837:839		Single stack bend
geometric
IL_5J7L_032
NA
IL_3JYV_0961/A/867:870,
1/A/956:960		No text annotation
IL_3JYV_0461/A/871:878,
1/A/949:955		No text annotation
IL_3JYV_0971/A/885:888,
1/A/923:926		Tandem non-canonical cWW pairs
geometric
IL_8P9A_421
IL_15225.2
IL_3JYV_0481/A/893:895,
1/A/916:918		Isolated non-canonical cWW pair
geometric
IL_7A0S_011
IL_71625.3
IL_3JYV_0491/A/895:898,
1/A/909:916		No text annotation
IL_3JYV_0501/A/984:993,
1/A/1009:1015		No text annotation
IL_3JYV_0981/A/1048:1051,
1/A/1062:1063		No text annotation
IL_3JYV_0541/A/1108:1115,
1/A/1126:1131		8x6 Sarcin-Ricin with inserted Y; G-bulge
geometric
IL_4LFB_034
IL_84044.1
IL_3JYV_0991/A/1143:1144,
1/A/1628:1630		Single bulged A
geometric
IL_5J7L_039
NA
IL_3JYV_0561/A/1146:1148,
1/A/1625:1626		Single bulged G
geometric
IL_6CZR_148
NA
IL_3JYV_0571/A/1154:1158,
1/A/1614:1619		No text annotation
IL_3JYV_0581/A/1170:1172,
1/A/1462:1464		Isolated non-canonical cWW pair
geometric
IL_4X4N_005
NA
IL_3JYV_0591/A/1175:1176,
1/A/1457:1459		No text annotation
IL_3JYV_0601/A/1209:1211,
1/A/1446:1448		Isolated non-canonical cWW pair
geometric
IL_7ECK_015
IL_01003.3
IL_3JYV_1071/A/1220:1222,
1/A/1254:1255		Single stack bend
geometric
IL_5J7L_269
NA
IL_3JYV_0621/A/1223:1230,
1/A/1246:1253		No text annotation
IL_3JYV_1001/A/1230:1232,
1/A/1245:1246		Single stack bend
geometric
IL_5J7L_269
NA
IL_3JYV_0641/A/1264:1266,
1/A/1437:1438		Single bulged U
geometric
IL_5J7L_046
NA
IL_3JYV_0651/A/1268:1272,
1/A/1433:1435		Isolated cWS basepair
geometric
IL_4LFB_044
IL_82453.1
IL_3JYV_0661/A/1273:1274,
1/A/1427:1431		Minor groove platform
geometric
IL_5J7L_048
NA
IL_3JYV_0671/A/1276:1277,
1/A/1423:1425		Single bulged A
geometric
IL_5J7L_049
NA
IL_3JYV_0681/A/1287:1289,
1/A/1320:1322		Isolated non-canonical cWW pair
geometric
IL_8PFQ_001
IL_01003.3
IL_3JYV_0691/A/1337:1345,
1/A/1374:1381		No text annotation
IL_3JYV_0701/A/1349:1351,
1/A/1366:1370		No text annotation
IL_3JYV_1011/A/1386:1388,
1/A/1404:1409		No text annotation
IL_3JYV_0721/A/1478:1484,
1/A/1518:1525		No text annotation
geometric
IL_5J7L_054
NA
IL_3JYV_0731/A/1486:1491,
1/A/1512:1516		No text annotation
IL_3JYV_0751/A/1538:1543,
1/A/1564:1569		No text annotation
geometric
IL_5J7L_057
NA
IL_3JYV_0761/A/1640:1642,
1/A/1755:1757		Isolated non-canonical cWW pair
geometric
IL_1UN6_005
IL_01003.3
IL_3JYV_0771/A/1642:1645,
1/A/1751:1755		Decoding loop related
geometric
IL_2O3V_002
IL_60988.2
IL_3JYV_0781/A/1648:1650,
1/A/1746:1748		Isolated non-canonical cWW pair
geometric
IL_7LYF_002
IL_87720.1
IL_3JYV_0791/A/1651:1654,
1/A/1742:1745		Double sheared
geometric
IL_4LFB_060
IL_58355.2
IL_3JYV_1021/A/1654:1656,
1/A/1741:1742		Single bulged U
geometric
IL_6LT7_001
IL_97561.3
IL_3JYV_0811/A/1663:1665,
1/A/1732:1734		Isolated non-canonical cWW pair
geometric
IL_7A0S_026
IL_01003.3
IL_3JYV_1031/A/1667:1670,
1/A/1727:1730		Tandem non-canonical cWW pairs
geometric
IL_8P9A_419
IL_15225.2
IL_3JYV_0831/A/1670:1672,
1/A/1725:1727		Isolated non-canonical cWW pair
geometric
IL_4RBZ_002
IL_01003.3
IL_3JYV_1041/A/1673:1676,
1/A/1721:1724		Tandem non-canonical cWW pairs
geometric
IL_4XW0_002
IL_71194.2
IL_3JYV_0851/A/1676:1680,
1/A/1717:1721		Triple non-canonical cWW pairs
geometric
IL_4LFB_065
IL_71154.3
IL_3JYV_1051/A/1686:1688,
1/A/1709:1711		Isolated non-canonical cWW pair
geometric
IL_7QUA_003
IL_01003.3
IL_3JYV_1061/A/1690:1693,
1/A/1704:1707		Tandem non-canonical cWW pairs
geometric
IL_5LQT_002
IL_15225.2

Problematic loops

No problematic loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_3JYV_0101/A/37:42,
1/A/433:439,
1/A/464:471		No text annotation
J3_3JYV_0011/A/697:704,
1/A/797:801,
1/A/842:845		No text annotation
J3_3JYV_0021/A/881:884,
1/A/927:935,
1/A/942:946		No text annotation
geometric
J3_8P9A_074
J3_23895.1
J3_3JYV_0111/A/1034:1041,
1/A/1071:1080,
1/A/1087:1093		No text annotation
J3_3JYV_0121/A/1158:1161,
1/A/1579:1586,
1/A/1606:1614		No text annotation
J3_3JYV_0041/A/1165:1168,
1/A/1466:1468,
1/A/1572:1575		No text annotation
geometric
J3_5J7L_005
NA
J3_3JYV_0051/A/1177:1183,
1/A/1194:1205,
1/A/1452:1456		No text annotation
J3_3JYV_0131/A/1211:1216,
1/A/1259:1263,
1/A/1439:1446		No text annotation
J3_3JYV_0071/A/1279:1285,
1/A/1324:1330,
1/A/1415:1421		No text annotation
geometric
J3_5J7L_008
NA
J3_3JYV_0141/A/1290:1291,
1/A/1300:1304,
1/A/1315:1319		No text annotation
J3_3JYV_0151/A/1333:1335,
1/A/1383:1386,
1/A/1409:1412		No text annotation
geometric
J3_4LFB_008
J3_82365.5
J3_3JYV_0161/A/1333:1335,
1/A/1383:1388,
1/A/1404:1412		No text annotation
J3_3JYV_0091/A/1468:1472,
1/A/1531:1538,
1/A/1569:1572		No text annotation
geometric
J3_4LFB_009
J3_03192.1
J4_3JYV_0011/7/7:10,
1/7/25:27,
1/7/43:49,
1/7/65:66		tRNA junction
homologous
J4_1IL2_001
J4_95067.1
J4_3JYV_0021/A/31:37,
1/A/471:479,
1/A/509:546,
1/A/592:595		No text annotation
J4_3JYV_0031/A/99:107,
1/A/307:309,
1/A/357:361,
1/A/383:384		No text annotation
J4_3JYV_0041/A/622:626,
1/A/972:979,
1/A/1020:1031,
1/A/1100:1101		No text annotation
J4_3JYV_0051/A/633:642,
1/A/692:696,
1/A/846:866,
1/A/961:965		No text annotation
J4_3JYV_0061/A/704:713,
1/A/742:746,
1/A/764:772,
1/A/784:797		No text annotation
J5_3JYV_0011/A/31:42,
1/A/433:439,
1/A/464:479,
1/A/509:546,
1/A/592:595		No text annotation
J5_3JYV_0021/A/31:48,
1/A/431:439,
1/A/464:479,
1/A/509:546,
1/A/592:595		No text annotation
J5_3JYV_0031/A/54:75,
1/A/83:97,
1/A/386:388,
1/A/409:411,
1/A/422:426		No text annotation
J5_3JYV_0041/A/124:141,
1/A/173:182,
1/A/203:209,
1/A/256:272,
1/A/284:293		No text annotation

Problematic loops

No problematic loops


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