RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_7SYO_0011/2/7:17No text annotation
geometric
HL_4V88_186
NA
HL_7SYO_0031/2/156:162GNRA related
homologous
HL_8C3A_194
NA
HL_7SYO_0051/2/288:295No text annotation
geometric
HL_5NFV_001
HL_69752.3
HL_7SYO_0071/2/377:387tRNA D-loop
geometric
HL_3TUP_001
HL_45175.1
HL_7SYO_0081/2/416:421No text annotation
geometric
HL_4V88_194
NA
HL_7SYO_0091/2/441:452No text annotation
geometric
HL_4V88_195
NA
HL_7SYO_0101/2/462:467UNCG
geometric
HL_5J7L_009
NA
HL_7SYO_0111/2/498:504No text annotation
geometric
HL_7A0S_011
HL_75660.6
HL_7SYO_0131/2/569:581No text annotation
geometric
HL_4V88_199
NA
HL_7SYO_0141/2/618:623No text annotation
geometric
HL_4WF9_003
HL_75660.6
HL_7SYO_0151/2/820:828No text annotation
geometric
HL_4V88_203
NA
HL_7SYO_0181/2/957:966No text annotation
geometric
HL_4V88_206
NA
HL_7SYO_0191/2/994:999GNRA
geometric
HL_3E5C_002
HL_34789.1
HL_7SYO_0201/2/1054:1064No text annotation
homologous
HL_8C3A_213
NA
HL_7SYO_0221/2/1140:1147GNRA with extra cWW
geometric
HL_7A0S_056
HL_45359.1
HL_7SYO_0231/2/1178:1183No text annotation
geometric
HL_4WF9_003
HL_75660.6
HL_7SYO_0241/2/1245:1254No text annotation
geometric
HL_4WF9_011
HL_75660.6
HL_7SYO_0261/2/1366:1373No text annotation
geometric
HL_4V88_215
NA
HL_7SYO_0281/2/1460:1466No text annotation
homologous
HL_8C3A_222
NA
HL_7SYO_0291/2/1565:1570GNRA
geometric
HL_3E5C_002
HL_34789.1
HL_7SYO_0301/2/1614:1625No text annotation
geometric
HL_4V88_219
NA
HL_7SYO_0311/2/1658:1666No text annotation
geometric
HL_4V88_220
NA
HL_7SYO_0331/2/1846:1853No text annotation
HL_7SYO_0361/z/232:235No text annotation
HL_7SYO_0391/z/288:297No text annotation
HL_7SYO_0401/z/304:313No text annotation

Problematic loops

#loop idProblemSequence
HL_7SYO_002No text annotation
HL_7SYO_041No text annotation
HL_7SYO_004GNRA
HL_7SYO_006Mini UNCG
HL_7SYO_042No text annotation
HL_7SYO_012No text annotation
HL_7SYO_043No text annotation
HL_7SYO_016No text annotation
HL_7SYO_017No text annotation
HL_7SYO_021No text annotation
HL_7SYO_044No text annotation
HL_7SYO_045No text annotation
HL_7SYO_025No text annotation
HL_7SYO_027No text annotation
HL_7SYO_032Externally structured
HL_7SYO_034No text annotation
HL_7SYO_035No text annotation
HL_7SYO_037No text annotation
HL_7SYO_046No text annotation
HL_7SYO_038No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_7SYO_0011/2/23:27,
1/2/647:651		No text annotation
geometric
IL_5TBW_121
NA
IL_7SYO_0021/2/34:36,
1/2/519:521		Isolated cWH basepair
geometric
IL_3R1C_032
NA
IL_7SYO_0031/2/41:47,
1/2/479:481		No text annotation
geometric
IL_4V88_387
NA
IL_7SYO_0041/2/49:51,
1/2/476:477		Minor groove platform
geometric
IL_4V88_388
NA
IL_7SYO_0051/2/56:62,
1/2/86:89		No text annotation
IL_7SYO_0061/2/63:68,
1/2/81:85		No text annotation
geometric
IL_4V88_390
NA
IL_7SYO_0901/2/63:69,
1/2/80:85		No text annotation
geometric
IL_3BBM_001
IL_47352.1
IL_7SYO_0071/2/108:112,
1/2/349:353		No text annotation
IL_7SYO_0911/2/108:121,
1/2/343:353		No text annotation
IL_7SYO_0081/2/112:121,
1/2/343:349		No text annotation
IL_7SYO_0091/2/123:125,
1/2/338:341		Isolated non-canonical cWW pair
geometric
IL_5J7L_009
NA
IL_7SYO_0111/2/145:151,
1/2/167:174		tWH-tWH-tHW-tHW
geometric
IL_4V88_394
NA
IL_7SYO_0121/2/152:154,
1/2/164:166		Isolated non-canonical cWW pair
geometric
IL_3D0U_006
IL_01003.1
IL_7SYO_0151/2/312:314,
1/2/336:337		Single bulged A
geometric
IL_4V88_399
NA
IL_7SYO_0161/2/315:319,
1/2/332:335		No text annotation
IL_7SYO_0171/2/359:364,
1/2/396:403		Kink-turn with non-sequential stacking
geometric
IL_5J7L_014
NA
IL_7SYO_1131/2/366:371,
1/2/393:394		No text annotation
homologous
IL_8P9A_392
IL_01372.1
IL_7SYO_0191/2/411:413,
1/2/424:429		No text annotation
geometric
IL_4V88_404
NA
IL_7SYO_0201/2/437:439,
1/2/454:456		Isolated non-canonical cWW pair
geometric
IL_4AOB_005
IL_23751.1
IL_7SYO_0941/2/437:439,
1/2/454:457		No text annotation
IL_7SYO_0221/2/487:489,
1/2/511:512		Single bulged U
geometric
IL_3D2V_001
IL_97561.1
IL_7SYO_0231/2/491:495,
1/2/508:509		C-loop
geometric
IL_5J7L_018
NA
IL_7SYO_0241/2/495:496,
1/2/506:508		Single bulged G
geometric
IL_5J7L_019
NA
IL_7SYO_0271/2/563:565,
1/2/585:592		No text annotation
homologous
IL_8C3A_420
NA
IL_7SYO_0281/2/566:569,
1/2/581:584		Tandem non-canonical cWW pairs
geometric
IL_402D_001
NA
IL_7SYO_0291/2/611:617,
1/2/624:632		Kink-turn related
geometric
IL_4V88_415
NA
IL_7SYO_0301/2/663:665,
1/2/1162:1164		Isolated non-canonical cWW pair
geometric
IL_6IA2_005
NA
IL_7SYO_0311/2/665:671,
1/2/1161:1162		Major groove intercalation
geometric
IL_1U9S_003
NA
IL_7SYO_0321/2/673:675,
1/2/1030:1032		Isolated non-canonical cWW pair
geometric
IL_4YHW_001
NA
IL_7SYO_0331/2/676:682,
1/2/1023:1029		No text annotation
IL_7SYO_0371/2/802:803,
1/2/860:863		Major groove minor groove platform; mini C-loop
geometric
IL_1S03_007
IL_73108.1
IL_7SYO_1141/2/802:804,
1/2/859:863		8-nt loop receptor
geometric
IL_6DME_002
IL_44025.1
IL_7SYO_0381/2/805:807,
1/2/856:858		Isolated non-canonical cWW pair
geometric
IL_6IA2_005
NA
IL_7SYO_0391/2/807:815,
1/2/849:856		No text annotation
geometric
IL_4V88_425
NA
IL_7SYO_0421/2/922:923,
1/2/1019:1022		Major groove platform; stack outside cWW
geometric
IL_6N5P_003
IL_74641.1
IL_7SYO_1151/2/925:927,
1/2/1014:1017		Isolated cWH basepair
homologous
IL_8CRE_432
IL_10892.1
IL_7SYO_0441/2/927:931,
1/2/1010:1014		No text annotation
geometric
IL_5TBW_121
NA
IL_7SYO_0991/2/927:935,
1/2/1007:1014		No text annotation
IL_7SYO_0451/2/931:935,
1/2/1007:1010		Tandem non-canonical cWW pairs
geometric
IL_4V88_431
NA
IL_7SYO_1161/2/1041:1047,
1/2/1071:1074		No text annotation
IL_7SYO_0491/2/1047:1051,
1/2/1067:1071		tSH-tHW-tHS
geometric
IL_6CZR_145
NA
IL_7SYO_0501/2/1091:1093,
1/2/1152:1158		No text annotation
geometric
IL_4V88_437
NA
IL_7SYO_1001/2/1094:1096,
1/2/1136:1151		No text annotation
IL_7SYO_0511/2/1098:1103,
1/2/1129:1134		No text annotation
IL_7SYO_1011/2/1108:1110,
1/2/1123:1124		Minor groove platform
geometric
IL_8C3A_396
NA
IL_7SYO_0531/2/1168:1175,
1/2/1186:1191		8x6 Sarcin-Ricin with inserted Y; G-bulge
geometric
IL_4LFB_034
IL_84044.1
IL_7SYO_0541/2/1211:1217,
1/2/1681:1688		No text annotation
IL_7SYO_0551/2/1230:1232,
1/2/1526:1528		Isolated non-canonical cWW pair
geometric
IL_4V88_444
NA
IL_7SYO_0561/2/1235:1236,
1/2/1521:1523		Minor groove platform
geometric
IL_4V88_445
NA
IL_7SYO_0611/2/1325:1327,
1/2/1502:1503		Single bulged U
geometric
IL_3MEI_001
NA
IL_7SYO_1061/2/1337:1340,
1/2/1487:1490		No text annotation
geometric
IL_4N0T_004
IL_32983.1
IL_7SYO_0641/2/1338:1340,
1/2/1487:1488		Single stack bend
geometric
IL_5J7L_032
NA
IL_7SYO_0651/2/1347:1349,
1/2/1380:1382		Isolated cWH basepair
geometric
IL_4V88_453
NA
IL_7SYO_1171/2/1350:1363,
1/2/1375:1379		No text annotation
IL_7SYO_0671/2/1363:1365,
1/2/1374:1375		Minor groove platform
geometric
IL_6DLR_003
IL_34520.1
IL_7SYO_0701/2/1412:1413,
1/2/1427:1429		Single bulged G
geometric
IL_5J7L_019
NA
IL_7SYO_0711/2/1537:1539,
1/2/1594:1596		Isolated non-canonical cWW pair
geometric
IL_4E48_005
IL_01003.1
IL_7SYO_1081/2/1541:1550,
1/2/1582:1592		No text annotation
IL_7SYO_0721/2/1550:1558,
1/2/1577:1582		No text annotation
IL_7SYO_0741/2/1604:1610,
1/2/1629:1635		No text annotation
homologous
IL_8C3A_469
NA
IL_7SYO_0751/2/1702:1705,
1/2/1829:1833		No text annotation
geometric
IL_4V88_464
NA
IL_7SYO_1111/2/1702:1708,
1/2/1826:1833		No text annotation
IL_7SYO_0761/2/1705:1708,
1/2/1826:1829		Tandem non-canonical cWW pairs
geometric
IL_5EW4_002
IL_71194.1
IL_7SYO_1121/2/1729:1731,
1/2/1803:1805		Isolated non-canonical cWW pair
homologous
IL_8C3A_477
NA
IL_7SYO_0821/2/1733:1736,
1/2/1798:1801		Double sheared
geometric
IL_4V88_471
NA
IL_7SYO_0831/2/1739:1741,
1/2/1793:1795		Isolated non-canonical cWW pair
geometric
IL_4E48_002
IL_01003.1
IL_7SYO_0891/z/255:261,
1/z/272:277		No text annotation

Problematic loops

#loop idProblemSequence
IL_7SYO_010No text annotation
IL_7SYO_092No text annotation
IL_7SYO_013Double sheared with near cWW
IL_7SYO_014No text annotation
IL_7SYO_018No text annotation
IL_7SYO_093No text annotation
IL_7SYO_021Isolated near basepair
IL_7SYO_025No text annotation
IL_7SYO_095No text annotation
IL_7SYO_026No text annotation
IL_7SYO_096No text annotation
IL_7SYO_034No text annotation
IL_7SYO_035No text annotation
IL_7SYO_036No text annotation
IL_7SYO_097No text annotation
IL_7SYO_040Tandem non-canonical cWW pairs
IL_7SYO_098No text annotation
IL_7SYO_041Isolated non-canonical cWW pair
IL_7SYO_043Tandem non-canonical cWW pairs
IL_7SYO_046Tandem non-canonical cWW pairs
IL_7SYO_047Kink-turn
IL_7SYO_048No text annotation
IL_7SYO_052No text annotation
IL_7SYO_102No text annotation
IL_7SYO_057No text annotation
IL_7SYO_058No text annotation
IL_7SYO_103No text annotation
IL_7SYO_059No text annotation
IL_7SYO_104No text annotation
IL_7SYO_060No text annotation
IL_7SYO_062No text annotation
IL_7SYO_105No text annotation
IL_7SYO_063Single bulged A
IL_7SYO_066No text annotation
IL_7SYO_068No text annotation
IL_7SYO_118No text annotation
IL_7SYO_069No text annotation
IL_7SYO_107No text annotation
IL_7SYO_109No text annotation
IL_7SYO_073Tandem non-canonical cWW pairs
IL_7SYO_110Partly complementary
IL_7SYO_119Tandem non-canonical cWW pairs
IL_7SYO_077No text annotation
IL_7SYO_120No text annotation
IL_7SYO_078Partly complementary
IL_7SYO_079Double sheared
IL_7SYO_080Single bulged U
IL_7SYO_081Tandem non-canonical cWW pairs
IL_7SYO_084Triple sheared
IL_7SYO_085No text annotation
IL_7SYO_121No text annotation
IL_7SYO_086No text annotation
IL_7SYO_087No text annotation
IL_7SYO_088No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_7SYO_0111/2/37:41,
1/2/481:487,
1/2/512:518		No text annotation
J3_7SYO_0121/2/682:685,
1/2/918:922,
1/2/1022:1023		No text annotation
J3_7SYO_0131/2/682:685,
1/2/918:923,
1/2/1019:1023		No text annotation
J3_7SYO_0021/2/816:819,
1/2/829:831,
1/2/843:848		No text annotation
homologous
J3_8C3A_035
NA
J3_7SYO_0031/2/938:941,
1/2/985:993,
1/2/1000:1004		No text annotation
homologous
J3_8P9A_074
J3_23895.1
J3_7SYO_0041/2/1094:1097,
1/2/1135:1140,
1/2/1147:1151		No text annotation
J3_7SYO_0051/2/1218:1221,
1/2/1645:1651,
1/2/1673:1680		No text annotation
homologous
J3_8C3A_038
NA
J3_7SYO_0061/2/1225:1228,
1/2/1530:1532,
1/2/1638:1641		No text annotation
homologous
J3_8C3A_039
NA
J3_7SYO_0161/2/1237:1244,
1/2/1255:1266,
1/2/1516:1520		No text annotation
homologous
J3_8CRE_080
J3_88451.1
J3_7SYO_0081/2/1273:1277,
1/2/1320:1324,
1/2/1504:1510		No text annotation
homologous
J3_8C3A_041
NA
J3_7SYO_0091/2/1340:1347,
1/2/1382:1389,
1/2/1481:1487		No text annotation
J3_7SYO_0141/2/1391:1395,
1/2/1450:1456,
1/2/1470:1479		No text annotation
J3_7SYO_0101/2/1532:1536,
1/2/1597:1604,
1/2/1635:1638		No text annotation
homologous
J3_8C3A_044
NA
J3_7SYO_0151/z/133:137,
1/z/287:303,
1/z/314:315		No text annotation
J4_7SYO_0061/2/98:106,
1/2/355:357,
1/2/405:409,
1/2/431:432		No text annotation
homologous
J4_8CRE_021
J4_15241.2
J4_7SYO_0021/2/671:673,
1/2/1032:1037,
1/2/1078:1089,
1/2/1160:1161		No text annotation
homologous
J4_8P9A_022
J4_14595.1
J4_7SYO_0031/z/133:137,
1/z/287:288,
1/z/297:303,
1/z/314:315		No text annotation
J4_7SYO_0051/z/153:156,
1/z/171:172,
1/z/227:229,
1/z/238:239		No text annotation
J5_7SYO_0011/2/30:34,
1/2/521:532,
1/2/552:563,
1/2/592:608,
1/2/635:644		No text annotation
J5_7SYO_0021/2/30:34,
1/2/521:532,
1/2/552:565,
1/2/585:608,
1/2/635:644		No text annotation
J5_7SYO_0051/2/53:62,
1/2/86:96,
1/2/434:437,
1/2/457:461,
1/2/468:474		No text annotation
J5_7SYO_0061/2/123:129,
1/2/183:185,
1/2/214:219,
1/2/302:312,
1/2/337:341		No text annotation

Problematic loops

#loop idProblemSequence
J3_7SYO_001No text annotation
J3_7SYO_007No text annotation
J4_7SYO_001No text annotation
J4_7SYO_004No text annotation
J5_7SYO_003No text annotation
J5_7SYO_004No text annotation

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