RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_7SYR_0011/2/7:17No text annotation
geometric
HL_4V88_186
NA
HL_7SYR_0021/2/69:80No text annotation
geometric
HL_361D_002
HL_13963.3
HL_7SYR_0031/2/156:162GNRA related
geometric
HL_4V88_188
NA
HL_7SYR_0041/2/196:203No text annotation
HL_7SYR_0051/2/288:295No text annotation
geometric
HL_5NFV_001
HL_69752.2
HL_7SYR_0071/2/377:387tRNA D-loop
geometric
HL_6JXM_001
HL_20811.4
HL_7SYR_0081/2/416:421No text annotation
geometric
HL_4V88_194
NA
HL_7SYR_0091/2/441:452No text annotation
geometric
HL_4V88_195
NA
HL_7SYR_0101/2/462:467UNCG
geometric
HL_6DLR_002
HL_34617.5
HL_7SYR_0111/2/498:504No text annotation
geometric
HL_5NFV_001
HL_69752.2
HL_7SYR_0121/2/537:546No text annotation
HL_7SYR_0131/2/569:581No text annotation
geometric
HL_4V88_199
NA
HL_7SYR_0141/2/618:623GNRA variation
geometric
HL_4V88_200
NA
HL_7SYR_0161/2/820:828No text annotation
geometric
HL_4V88_203
NA
HL_7SYR_0491/2/884:902No text annotation
HL_7SYR_0191/2/957:966No text annotation
geometric
HL_5J7L_015
HL_75293.5
HL_7SYR_0201/2/994:999No text annotation
geometric
HL_5U3G_001
HL_75660.5
HL_7SYR_0211/2/1054:1064No text annotation
geometric
HL_4V88_208
NA
HL_7SYR_0221/2/1113:1120Pseudoknot geometry
geometric
HL_4GXY_003
HL_65794.5
HL_7SYR_0231/2/1141:1146GNRA
geometric
HL_4V88_210
NA
HL_7SYR_0241/2/1178:1183GNRA
geometric
HL_5TBW_019
NA
HL_7SYR_0251/2/1245:1254No text annotation
geometric
HL_4V88_212
NA
HL_7SYR_0261/2/1295:1304No text annotation
geometric
HL_7RQB_011
NA
HL_7SYR_0271/2/1353:1358GNRA
geometric
HL_5J7L_023
HL_37824.8
HL_7SYR_0281/2/1366:1373No text annotation
geometric
HL_4V88_215
NA
HL_7SYR_0301/2/1460:1466GNRA
geometric
HL_4V88_217
NA
HL_7SYR_0311/2/1565:1570GNRA
geometric
HL_4WF9_015
HL_37824.8
HL_7SYR_0321/2/1614:1625No text annotation
geometric
HL_4V88_219
NA
HL_7SYR_0331/2/1658:1666No text annotation
geometric
HL_4V88_220
NA
HL_7SYR_0351/2/1847:1852GNRA variation
geometric
HL_4V88_222
NA
HL_7SYR_0361/i/13:21tRNA D-loop
geometric
HL_6JXM_001
HL_20811.4
HL_7SYR_0371/i/30:38tRNA anticodon loop
geometric
HL_4TUE_034
HL_06059.7
HL_7SYR_0381/i/52:60T-loop with 2 stacked bulged bases
geometric
HL_1QU2_003
HL_28252.9
HL_7SYR_0391/z/161:166No text annotation
HL_7SYR_0411/z/232:235No text annotation
HL_7SYR_0481/z/262:271No text annotation
HL_7SYR_0431/z/280:283No text annotation
HL_7SYR_0441/z/294:299No text annotation
HL_7SYR_0451/z/304:313No text annotation

Problematic loops

#loop idProblemSequence
HL_7SYR_006No text annotation
HL_7SYR_015No text annotation
HL_7SYR_017No text annotation
HL_7SYR_018No text annotation
HL_7SYR_046No text annotation
HL_7SYR_029No text annotation
HL_7SYR_034No text annotation
HL_7SYR_047No text annotation
HL_7SYR_040No text annotation
HL_7SYR_042No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_7SYR_0011/2/23:25,
1/2/649:651		Isolated non-canonical cWW pair
geometric
IL_4M4O_001
IL_87907.2
IL_7SYR_0021/2/34:36,
1/2/519:521		Isolated cWH basepair
geometric
IL_4J50_001
IL_10167.6
IL_7SYR_0031/2/37:40,
1/2/514:518		Double sheared
geometric
IL_4WF9_016
IL_09705.15
IL_7SYR_0041/2/41:47,
1/2/479:481		No text annotation
geometric
IL_4V88_387
NA
IL_7SYR_0051/2/49:51,
1/2/476:477		Minor groove platform
geometric
IL_4V88_388
NA
IL_7SYR_1151/2/57:62,
1/2/86:88		No text annotation
homologous
IL_8P9A_378
IL_61299.4
IL_7SYR_0071/2/63:68,
1/2/81:85		No text annotation
geometric
IL_4V88_390
NA
IL_7SYR_0081/2/108:110,
1/2/351:353		Isolated non-canonical cWW pair
geometric
IL_1ZX7_004
NA
IL_7SYR_0971/2/108:112,
1/2/349:353		Partly complementary
geometric
IL_7VYX_008
IL_49751.4
IL_7SYR_0091/2/110:112,
1/2/349:351		Isolated non-canonical cWW pair
geometric
IL_4YHW_001
IL_87907.2
IL_7SYR_0101/2/112:115,
1/2/348:349		Multiple bulged bases
geometric
IL_5WLH_001
IL_82107.5
IL_7SYR_0111/2/116:121,
1/2/343:347		No text annotation
geometric
IL_4V88_393
NA
IL_7SYR_0131/2/145:151,
1/2/167:174		tWH-tWH-tHW-tHW
geometric
IL_5J7L_012
IL_80604.6
IL_7SYR_0141/2/152:155,
1/2/163:166		Tandem non-canonical cWW pairs
geometric
IL_6CZR_168
NA
IL_7SYR_0151/2/188:192,
1/2/207:211		Double sheared with non-canonical cWW
geometric
IL_5J7L_274
IL_17948.2
IL_7SYR_0161/2/216:219,
1/2/302:309		No text annotation
IL_7SYR_0181/2/312:314,
1/2/336:337		Single bulged A
geometric
IL_4V88_399
NA
IL_7SYR_0191/2/317:319,
1/2/332:333		Single stack bend with SAM intercalation
geometric
IL_6FZ0_001
IL_90729.1
IL_7SYR_0201/2/359:364,
1/2/396:403		Kink-turn with non-sequential stacking
geometric
IL_5J7L_014
IL_46174.3
IL_7SYR_0211/2/366:371,
1/2/393:394		No text annotation
geometric
IL_5Y58_001
IL_59877.1
IL_7SYR_0221/2/411:413,
1/2/424:429		No text annotation
geometric
IL_4V88_404
NA
IL_7SYR_1161/2/437:439,
1/2/454:456		Isolated cWH basepair
homologous
IL_8CRE_411
IL_10167.6
IL_7SYR_0241/2/459:461,
1/2/468:470		Isolated near basepair
geometric
IL_3NJ7_004
IL_42997.3
IL_7SYR_0251/2/487:489,
1/2/511:512		Single bulged U
geometric
IL_5J7L_017
IL_89505.4
IL_7SYR_0261/2/491:495,
1/2/508:509		C-loop
geometric
IL_5J7L_018
IL_03109.3
IL_7SYR_0271/2/495:496,
1/2/506:508		Single bulged G
geometric
IL_5J7L_019
IL_00225.14
IL_7SYR_1171/2/529:530,
1/2/554:556		Single bulged A
homologous
IL_8P9A_399
IL_31462.7
IL_7SYR_1011/2/535:537,
1/2/546:549		No text annotation
IL_7SYR_0301/2/563:565,
1/2/585:592		Isolated tHS basepair with bulges
geometric
IL_7RQB_082
NA
IL_7SYR_1021/2/563:569,
1/2/581:592		No text annotation
IL_7SYR_0311/2/566:569,
1/2/581:584		Tandem non-canonical cWW pairs
geometric
IL_6JDV_001
IL_77658.1
IL_7SYR_0321/2/599:608,
1/2/635:637		No text annotation
IL_7SYR_0331/2/611:617,
1/2/624:632		Kink-turn related
geometric
IL_4V88_415
NA
IL_7SYR_0341/2/663:665,
1/2/1162:1164		Isolated non-canonical cWW pair
geometric
IL_1Y27_001
IL_87907.2
IL_7SYR_0351/2/665:671,
1/2/1161:1162		No text annotation
geometric
IL_4V88_416
NA
IL_7SYR_0361/2/673:675,
1/2/1030:1032		Isolated non-canonical cWW pair
geometric
IL_4LFB_061
NA
IL_7SYR_0371/2/676:680,
1/2/1025:1029		tSH-tHW-tHS
geometric
IL_4V88_418
NA
IL_7SYR_0381/2/692:696,
1/2/730:734		No text annotation
IL_7SYR_0401/2/752:754,
1/2/790:791		No text annotation
IL_7SYR_0411/2/802:803,
1/2/860:863		Major groove minor groove platform; mini C-loop
geometric
IL_4V88_423
NA
IL_7SYR_0421/2/805:807,
1/2/856:858		Isolated non-canonical cWW pair
geometric
IL_6IA2_005
IL_87907.2
IL_7SYR_0431/2/807:815,
1/2/849:856		No text annotation
geometric
IL_4V88_425
NA
IL_7SYR_0441/2/874:876,
1/2/910:912		Isolated non-canonical cWW pair
geometric
IL_4E59_001
IL_87907.2
IL_7SYR_0451/2/877:879,
1/2/907:909		Isolated non-canonical cWW pair
geometric
IL_5TBW_027
NA
IL_7SYR_0461/2/922:923,
1/2/1019:1022		Major groove platform; stack outside cWW
geometric
IL_6N5P_003
IL_50694.7
IL_7SYR_1051/2/925:926,
1/2/1015:1017		Single bulged U
geometric
IL_3NDB_005
IL_89505.4
IL_7SYR_1061/2/928:931,
1/2/1010:1013		Tandem non-canonical cWW pairs
homologous
IL_8C3A_437
NA
IL_7SYR_0491/2/931:935,
1/2/1007:1010		Tandem non-canonical cWW pairs
geometric
IL_4V88_431
NA
IL_7SYR_0501/2/942:945,
1/2/981:984		Tandem non-canonical cWW pairs
geometric
IL_4V88_432
NA
IL_7SYR_0511/2/952:956,
1/2/967:974		Kink-turn
geometric
IL_4V88_434
NA
IL_7SYR_0521/2/1042:1047,
1/2/1071:1073		Other IL
geometric
IL_4V88_435
NA
IL_7SYR_0531/2/1047:1051,
1/2/1067:1071		tSH-tHW-tHS
geometric
IL_4V88_436
NA
IL_7SYR_0541/2/1091:1093,
1/2/1152:1158		No text annotation
geometric
IL_4V88_437
NA
IL_7SYR_0551/2/1098:1101,
1/2/1131:1134		Tandem non-canonical cWW pairs
geometric
IL_4V88_438
NA
IL_7SYR_0561/2/1101:1103,
1/2/1129:1131		Isolated non-canonical cWW pair
geometric
IL_4WF9_020
IL_87907.2
IL_7SYR_0571/2/1108:1110,
1/2/1123:1124		Minor groove platform
geometric
IL_4V88_412
NA
IL_7SYR_0581/2/1168:1175,
1/2/1186:1191		8x6 Sarcin-Ricin with inserted Y; G-bulge
geometric
IL_4V88_440
NA
IL_7SYR_0591/2/1202:1204,
1/2/1694:1697		Isolated non-canonical cWW pair
geometric
IL_4KYY_002
IL_07785.1
IL_7SYR_1071/2/1202:1208,
1/2/1691:1697		No text annotation
IL_7SYR_0601/2/1204:1208,
1/2/1691:1694		Tandem non-canonical cWW pairs
geometric
IL_5EW4_002
IL_85033.2
IL_7SYR_0611/2/1214:1217,
1/2/1681:1685		C-loop
geometric
IL_4V88_443
NA
IL_7SYR_0621/2/1230:1232,
1/2/1526:1528		Isolated non-canonical cWW pair
geometric
IL_4V88_444
NA
IL_7SYR_0631/2/1235:1236,
1/2/1521:1523		Minor groove platform
geometric
IL_4V88_445
NA
IL_7SYR_0641/2/1270:1273,
1/2/1510:1512		No text annotation
geometric
IL_4N0T_004
IL_99358.1
IL_7SYR_0651/2/1281:1287,
1/2/1314:1316		No text annotation
IL_7SYR_1081/2/1281:1294,
1/2/1305:1316		No text annotation
IL_7SYR_0661/2/1287:1294,
1/2/1305:1314		No text annotation
IL_7SYR_0671/2/1325:1327,
1/2/1502:1503		Single bulged U
geometric
IL_3MEI_001
IL_89505.4
IL_7SYR_0681/2/1329:1335,
1/2/1492:1500		No text annotation
homologous
IL_8P9A_439
IL_86012.1
IL_7SYR_0691/2/1337:1338,
1/2/1488:1490		Single bulged A
geometric
IL_4V88_452
NA
IL_7SYR_1091/2/1337:1340,
1/2/1487:1490		No text annotation
geometric
IL_4N0T_004
IL_99358.1
IL_7SYR_0701/2/1338:1340,
1/2/1487:1488		Single stack bend
geometric
IL_5TBW_009
NA
IL_7SYR_0711/2/1347:1349,
1/2/1380:1382		Isolated cWH basepair
geometric
IL_4V88_453
NA
IL_7SYR_0721/2/1363:1365,
1/2/1374:1375		Minor groove platform
geometric
IL_5ML7_009
IL_51454.3
IL_7SYR_0731/2/1395:1399,
1/2/1447:1450		Tandem non-canonical cWW pairs
geometric
IL_3WBM_003
IL_85033.2
IL_7SYR_1181/2/1402:1405,
1/2/1441:1444		No text annotation
homologous
IL_8CRE_481
IL_78800.1
IL_7SYR_0751/2/1412:1413,
1/2/1427:1429		Single bulged G
geometric
IL_5J7L_019
IL_00225.14
IL_7SYR_0761/2/1537:1539,
1/2/1594:1596		Isolated non-canonical cWW pair
geometric
IL_3SZX_002
IL_87907.2
IL_7SYR_1101/2/1541:1550,
1/2/1582:1592		No text annotation
IL_7SYR_0771/2/1550:1558,
1/2/1577:1582		180 degree turn
geometric
IL_5J7L_055
IL_11344.2
IL_7SYR_0781/2/1560:1563,
1/2/1572:1575		Tandem non-canonical cWW pairs
geometric
IL_1D4R_001
IL_85033.2
IL_7SYR_0791/2/1604:1610,
1/2/1629:1635		No text annotation
homologous
IL_8C3A_469
NA
IL_7SYR_0801/2/1702:1705,
1/2/1829:1833		No text annotation
homologous
IL_8C3A_471
NA
IL_7SYR_0811/2/1706:1708,
1/2/1826:1828		Isolated non-canonical cWW pair
geometric
IL_5MWI_007
NA
IL_7SYR_0821/2/1708:1711,
1/2/1822:1826		No text annotation
homologous
IL_8CRE_469
IL_11399.2
IL_7SYR_0831/2/1714:1716,
1/2/1817:1819		Isolated non-canonical cWW pair
geometric
IL_4LFB_006
IL_87907.2
IL_7SYR_0841/2/1717:1720,
1/2/1813:1816		Double sheared
geometric
IL_4LFB_060
IL_09705.15
IL_7SYR_0851/2/1720:1722,
1/2/1812:1813		Single bulged U
geometric
IL_4V88_469
NA
IL_7SYR_0871/2/1729:1731,
1/2/1803:1805		Isolated non-canonical cWW pair
geometric
IL_4LFB_010
IL_87907.2
IL_7SYR_0881/2/1733:1736,
1/2/1798:1801		Double sheared
geometric
IL_4V88_471
NA
IL_7SYR_0891/2/1739:1741,
1/2/1793:1795		Isolated non-canonical cWW pair
geometric
IL_4E48_002
IL_87907.2
IL_7SYR_0901/2/1742:1746,
1/2/1788:1792		Triple sheared
geometric
IL_7RQB_075
NA
IL_7SYR_0911/2/1750:1751,
1/2/1782:1784		No text annotation
IL_7SYR_0921/2/1751:1753,
1/2/1780:1782		Single stack bend
geometric
IL_5TBW_375
NA
IL_7SYR_0931/2/1753:1754,
1/2/1778:1780		No text annotation
IL_7SYR_0941/z/135:137,
1/z/287:289		No text annotation
IL_7SYR_0951/z/149:150,
1/z/242:244		No text annotation
IL_7SYR_0961/z/255:261,
1/z/272:277		No text annotation

Problematic loops

#loop idProblemSequence
IL_7SYR_006No text annotation
IL_7SYR_098Isolated non-canonical cWW pair
IL_7SYR_012No text annotation
IL_7SYR_099No text annotation
IL_7SYR_017No text annotation
IL_7SYR_100No text annotation
IL_7SYR_023Tandem non-canonical cWW pairs
IL_7SYR_028Other IL
IL_7SYR_029No text annotation
IL_7SYR_039No text annotation
IL_7SYR_103No text annotation
IL_7SYR_104No text annotation
IL_7SYR_047Tandem non-canonical cWW pairs
IL_7SYR_048No text annotation
IL_7SYR_074No text annotation
IL_7SYR_111No text annotation
IL_7SYR_112Tandem non-canonical cWW pairs
IL_7SYR_086Isolated cWS basepair
IL_7SYR_113No text annotation
IL_7SYR_114No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_7SYR_0141/2/37:41,
1/2/481:487,
1/2/512:518		No text annotation
J3_7SYR_0011/2/40:41,
1/2/481:487,
1/2/512:514		No text annotation
geometric
J3_4V88_078
NA
J3_7SYR_0021/2/682:685,
1/2/917:922,
1/2/1022:1023		No text annotation
J3_7SYR_0031/2/816:819,
1/2/829:831,
1/2/843:848		No text annotation
homologous
J3_8C3A_035
NA
J3_7SYR_0041/2/938:941,
1/2/985:993,
1/2/1000:1004		No text annotation
homologous
J3_8P9A_074
J3_76375.1
J3_7SYR_0051/2/1094:1096,
1/2/1136:1140,
1/2/1147:1151		No text annotation
J3_7SYR_0061/2/1218:1221,
1/2/1645:1651,
1/2/1673:1680		No text annotation
homologous
J3_8C3A_038
NA
J3_7SYR_0071/2/1225:1228,
1/2/1530:1532,
1/2/1638:1641		No text annotation
homologous
J3_8C3A_039
NA
J3_7SYR_0151/2/1237:1244,
1/2/1255:1266,
1/2/1516:1520		No text annotation
homologous
J3_8C3A_040
NA
J3_7SYR_0091/2/1273:1277,
1/2/1320:1324,
1/2/1504:1510		No text annotation
homologous
J3_8C3A_041
NA
J3_7SYR_0101/2/1340:1345,
1/2/1384:1389,
1/2/1481:1487		No text annotation
J3_7SYR_0111/2/1350:1351,
1/2/1360:1363,
1/2/1375:1379		No text annotation
homologous
J3_8C3A_085
NA
J3_7SYR_0121/2/1391:1395,
1/2/1450:1456,
1/2/1470:1479		No text annotation
J3_7SYR_0131/2/1532:1536,
1/2/1597:1604,
1/2/1635:1638		No text annotation
homologous
J3_8C3A_044
NA
J4_7SYR_0011/2/98:106,
1/2/355:357,
1/2/405:409,
1/2/431:432		No text annotation
homologous
J4_8C3A_021
NA
J4_7SYR_0021/2/671:673,
1/2/1032:1037,
1/2/1078:1089,
1/2/1160:1161		No text annotation
homologous
J4_8P9A_022
J4_61885.6
J4_7SYR_0031/i/7:10,
1/i/24:26,
1/i/42:48,
1/i/64:65		tRNA junction
homologous
J4_3WQY_001
J4_70449.29
J4_7SYR_0041/z/133:134,
1/z/290:291,
1/z/302:303,
1/z/314:315		No text annotation
J4_7SYR_0051/z/140:141,
1/z/252:253,
1/z/279:280,
1/z/283:284		No text annotation
J4_7SYR_0061/z/153:156,
1/z/171:172,
1/z/227:229,
1/z/238:239		No text annotation
J5_7SYR_0051/2/30:34,
1/2/521:527,
1/2/558:563,
1/2/592:595,
1/2/641:644		No text annotation
homologous
J5_8CRE_018
J5_80702.1
J5_7SYR_0061/2/30:34,
1/2/521:527,
1/2/558:569,
1/2/581:595,
1/2/641:644		No text annotation
J5_7SYR_0031/2/53:56,
1/2/89:96,
1/2/434:436,
1/2/457:461,
1/2/468:474		No text annotation
J5_7SYR_0071/2/123:129,
1/2/183:185,
1/2/214:215,
1/2/310:312,
1/2/337:341		No text annotation

Problematic loops

#loop idProblemSequence
J3_7SYR_008No text annotation
J5_7SYR_001No text annotation
J5_7SYR_002No text annotation
J5_7SYR_004No text annotation

Coloring options:
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