RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_3JAQ_0011/1/13:22No text annotation
homologous
HL_3KFU_004
NA
HL_3JAQ_0021/1/31:39No text annotation
homologous
HL_4YCP_002
NA
HL_3JAQ_0031/1/53:61No text annotation
homologous
HL_1YFG_003
NA
HL_3JAQ_0041/2/7:17No text annotation
homologous
HL_4V88_186
NA
HL_3JAQ_0051/2/70:81No text annotation
HL_3JAQ_0061/2/153:159GNRA related
homologous
HL_4V88_188
NA
HL_3JAQ_0071/2/189:194No text annotation
geometric
HL_7RQB_011
NA
HL_3JAQ_0081/2/229:234UNCG
geometric
HL_5J7L_171
HL_34617.5
HL_3JAQ_0091/2/242:249T-loop with 1 bulged base
homologous
HL_4V88_191
NA
HL_3JAQ_0101/2/274:280No text annotation
geometric
HL_5TBW_006
NA
HL_3JAQ_0111/2/329:337GNRA related
homologous
HL_4V88_193
NA
HL_3JAQ_0121/2/367:372No text annotation
homologous
HL_4V88_194
NA
HL_3JAQ_0131/2/392:403No text annotation
homologous
HL_4V88_195
NA
HL_3JAQ_0141/2/413:418UNCG
homologous
HL_4V88_196
NA
HL_3JAQ_0151/2/449:455No text annotation
homologous
HL_4V88_197
NA
HL_3JAQ_0161/2/490:495No text annotation
homologous
HL_4V88_198
NA
HL_3JAQ_0171/2/516:534No text annotation
HL_3JAQ_0181/2/568:573GNRA variation
homologous
HL_4V88_200
NA
HL_3JAQ_0191/2/715:723No text annotation
HL_3JAQ_0201/2/764:772No text annotation
homologous
HL_4V88_203
NA
HL_3JAQ_0211/2/777:782No text annotation
HL_3JAQ_0221/2/828:842Pseudoknot geometry
homologous
HL_4V88_205
NA
HL_3JAQ_0231/2/899:908No text annotation
homologous
HL_4V88_206
NA
HL_3JAQ_0241/2/936:941GNRA
homologous
HL_4V88_207
NA
HL_3JAQ_0251/2/996:1006No text annotation
homologous
HL_4V88_208
NA
HL_3JAQ_0261/2/1055:1063No text annotation
HL_3JAQ_0271/2/1083:1088GNRA
homologous
HL_4V88_210
NA
HL_3JAQ_0281/2/1120:1125GNRA
homologous
HL_4V88_211
NA
HL_3JAQ_0291/2/1187:1196No text annotation
homologous
HL_4V88_212
NA
HL_3JAQ_0301/2/1236:1247No text annotation
HL_3JAQ_0311/2/1295:1300GNRA
homologous
HL_4V88_214
NA
HL_3JAQ_0321/2/1308:1315No text annotation
homologous
HL_4V88_215
NA
HL_3JAQ_0331/2/1358:1363No text annotation
geometric
HL_2Y9H_003
HL_75660.5
HL_3JAQ_0351/2/1499:1504GNRA
homologous
HL_4V88_218
NA
HL_3JAQ_0361/2/1548:1559No text annotation
homologous
HL_8CRE_223
HL_67079.1
HL_3JAQ_0371/2/1592:1600No text annotation
homologous
HL_4V88_220
NA
HL_3JAQ_0391/2/1776:1781GNRA variation
homologous
HL_4V88_222
NA

Problematic loops

#loop idProblemSequence
HL_3JAQ_034No text annotation
HL_3JAQ_038No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_3JAQ_0011/2/24:26,
1/2/599:600		Single bulged C
homologous
IL_8C3A_392
NA
IL_3JAQ_0021/2/37:41,
1/2/465:470		Triple sheared related
homologous
IL_4V88_386
NA
IL_3JAQ_0031/2/42:48,
1/2/430:432		No text annotation
homologous
IL_4V88_387
NA
IL_3JAQ_0041/2/50:52,
1/2/427:428		Minor groove platform
homologous
IL_4V88_388
NA
IL_3JAQ_0051/2/58:63,
1/2/87:89		No text annotation
homologous
IL_4V88_389
NA
IL_3JAQ_0071/2/109:112,
1/2/301:304		Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA
IL_3JAQ_0081/2/113:117,
1/2/298:300		Isolated non-canonical cWW pair
geometric
IL_6CZR_157
NA
IL_3JAQ_0091/2/117:123,
1/2/293:298		No text annotation
IL_3JAQ_0101/2/123:124,
1/2/291:293		Single stack bend
geometric
IL_4LFB_041
IL_90729.1
IL_3JAQ_0111/2/142:148,
1/2/164:171		tWH-tWH-tHW-tHW
homologous
IL_4V88_394
NA
IL_3JAQ_0121/2/149:151,
1/2/161:163		Isolated non-canonical cWW contact
homologous
IL_4V88_395
NA
IL_3JAQ_0131/2/185:188,
1/2/195:198		Double sheared
homologous
IL_4V88_396
NA
IL_3JAQ_0141/2/203:205,
1/2/258:262		Major groove platform with extra cWW
geometric
IL_4V88_397
NA
IL_3JAQ_0151/2/205:206,
1/2/256:258		Not an internal loop
geometric
IL_4UYK_002
NA
IL_3JAQ_0161/2/207:209,
1/2/254:255		Single stack bend
geometric
IL_4LFB_041
IL_90729.1
IL_3JAQ_0171/2/264:266,
1/2/287:288		Single bulged A
homologous
IL_4V88_399
NA
IL_3JAQ_0181/2/269:272,
1/2/282:284		No text annotation
homologous
IL_4V88_400
NA
IL_3JAQ_0191/2/310:315,
1/2/347:354		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_3JAQ_0201/2/317:322,
1/2/344:345		No text annotation
geometric
IL_5Y58_001
IL_59877.1
IL_3JAQ_0211/2/362:364,
1/2/375:380		No text annotation
homologous
IL_4V88_404
NA
IL_3JAQ_0221/2/388:390,
1/2/405:407		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_3JAQ_0231/2/410:412,
1/2/419:421		Isolated near basepair
homologous
IL_4V88_406
NA
IL_3JAQ_0241/2/438:440,
1/2/462:463		Single bulged U
homologous
IL_4V88_407
NA
IL_3JAQ_0251/2/442:446,
1/2/459:460		C-loop
geometric
IL_5J7L_018
IL_03109.3
IL_3JAQ_0261/2/446:447,
1/2/457:459		Single bulged G
geometric
IL_5J7L_019
IL_00225.14
IL_3JAQ_0271/2/549:556,
1/2/586:587		SSU/LSU pseudoknot
geometric
IL_4V88_413
NA
IL_3JAQ_0281/2/556:558,
1/2/585:586		Single bulged U
homologous
IL_4V88_414
NA
IL_3JAQ_0291/2/561:567,
1/2/574:582		Kink-turn related
homologous
IL_4V88_415
NA
IL_3JAQ_0301/2/623:625,
1/2/972:974		Isolated non-canonical cWW pair
homologous
IL_4V88_417
NA
IL_3JAQ_0311/2/626:630,
1/2/967:971		tSH-tHW-tHS
geometric
IL_7RQB_053
NA
IL_3JAQ_0321/2/650:656,
1/2/677:683		No text annotation
IL_3JAQ_0331/2/746:747,
1/2/801:804		Major groove minor groove platform; mini C-loop
homologous
IL_4V88_423
NA
IL_3JAQ_0341/2/748:751,
1/2/797:800		Tandem non-canonical cWW pairs
geometric
IL_1D4R_001
IL_85033.2
IL_3JAQ_0351/2/751:760,
1/2/789:797		No text annotation
IL_3JAQ_0361/2/818:821,
1/2/849:851		No text annotation
IL_3JAQ_0381/2/870:873,
1/2/952:955		Tandem non-canonical cWW pairs
geometric
IL_4V88_430
NA
IL_3JAQ_0391/2/873:877,
1/2/949:952		Tandem non-canonical cWW pairs
homologous
IL_4V88_431
NA
IL_3JAQ_0401/2/884:887,
1/2/923:926		Tandem non-canonical cWW pairs
homologous
IL_4V88_432
NA
IL_3JAQ_0411/2/892:898,
1/2/909:918		Kink-turn related
homologous
IL_8C3A_440
NA
IL_3JAQ_0421/2/983:993,
1/2/1009:1016		No text annotation
IL_3JAQ_0431/2/994:996,
1/2/1006:1008		Isolated non-canonical cWW pair
geometric
IL_1Y27_001
IL_87907.2
IL_3JAQ_0441/2/1033:1035,
1/2/1094:1100		No text annotation
homologous
IL_4V88_437
NA
IL_3JAQ_0451/2/1040:1044,
1/2/1072:1076		No text annotation
geometric
IL_5TBW_121
NA
IL_3JAQ_0461/2/1050:1052,
1/2/1065:1066		Single bulged U
homologous
IL_4V88_439
NA
IL_3JAQ_0471/2/1053:1055,
1/2/1063:1064		Single stack bend
geometric
IL_4LFB_041
IL_90729.1
IL_3JAQ_0481/2/1110:1117,
1/2/1128:1133		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4V88_440
NA
IL_3JAQ_0491/2/1143:1145,
1/2/1630:1631		Single stack bend
geometric
IL_4V84_420
IL_10569.1
IL_3JAQ_0501/2/1145:1146,
1/2/1628:1630		Single bulged A
homologous
IL_4V88_441
NA
IL_3JAQ_0511/2/1148:1150,
1/2/1625:1626		No text annotation
IL_3JAQ_0521/2/1156:1159,
1/2/1615:1619		C-loop
homologous
IL_4V88_443
NA
IL_3JAQ_0531/2/1172:1174,
1/2/1462:1464		Isolated non-canonical cWW pair
homologous
IL_4V88_444
NA
IL_3JAQ_0541/2/1177:1178,
1/2/1457:1459		Minor groove platform
homologous
IL_4V88_445
NA
IL_3JAQ_0551/2/1212:1214,
1/2/1446:1448		Isolated non-canonical cWW pair
homologous
IL_4V88_446
NA
IL_3JAQ_0561/2/1223:1232,
1/2/1251:1258		Kink-turn
geometric
IL_4V88_447
NA
IL_3JAQ_0571/2/1232:1233,
1/2/1249:1251		Single stack bend
geometric
IL_7A0S_005
IL_90729.1
IL_3JAQ_0581/2/1233:1235,
1/2/1248:1249		Minor groove platform
geometric
IL_4V88_454
NA
IL_3JAQ_0591/2/1267:1269,
1/2/1438:1439		Single bulged U
homologous
IL_4V88_449
NA
IL_3JAQ_0611/2/1279:1280,
1/2/1424:1426		Single bulged A
homologous
IL_4V88_452
NA
IL_3JAQ_0621/2/1289:1291,
1/2/1322:1324		Isolated cWH basepair
homologous
IL_4V88_453
NA
IL_3JAQ_0631/2/1305:1307,
1/2/1316:1317		Minor groove platform
geometric
IL_6DTD_003
IL_51454.3
IL_3JAQ_0641/2/1338:1341,
1/2/1381:1383		Isolated non-canonical cWW pair
homologous
IL_4V88_455
NA
IL_3JAQ_0651/2/1344:1347,
1/2/1375:1378		Minor groove platform
homologous
IL_4V88_456
NA
IL_3JAQ_0661/2/1352:1354,
1/2/1367:1370		Isolated non-canonical cWW with bulges
geometric
IL_3KTW_002
NA
IL_3JAQ_0671/2/1387:1389,
1/2/1405:1410		Major groove platform; stack outside cWW
homologous
IL_4V88_458
NA
IL_3JAQ_0681/2/1478:1485,
1/2/1517:1525		No text annotation
homologous
IL_8P9A_448
IL_91698.1
IL_3JAQ_0691/2/1486:1492,
1/2/1511:1516		180 degree turn
homologous
IL_4V88_460
NA
IL_3JAQ_0711/2/1538:1543,
1/2/1564:1569		No text annotation
geometric
IL_4V88_462
NA
IL_3JAQ_0721/2/1634:1636,
1/2/1762:1765		No text annotation
geometric
IL_5J7L_058
IL_61438.4
IL_3JAQ_0731/2/1636:1639,
1/2/1758:1762		No text annotation
homologous
IL_8CRE_467
IL_65718.4
IL_3JAQ_0741/2/1640:1642,
1/2/1755:1757		Isolated non-canonical cWW pair
geometric
IL_3GM7_004
IL_87907.2
IL_3JAQ_0751/2/1642:1645,
1/2/1751:1755		No text annotation
IL_3JAQ_0761/2/1648:1650,
1/2/1746:1748		Isolated non-canonical cWW pair
homologous
IL_4V88_467
NA
IL_3JAQ_0771/2/1651:1654,
1/2/1742:1745		Double sheared
homologous
IL_4V88_468
NA
IL_3JAQ_0781/2/1654:1656,
1/2/1741:1742		Single bulged U
geometric
IL_4V9F_039
IL_89505.4
IL_3JAQ_0791/2/1663:1665,
1/2/1732:1734		Isolated non-canonical cWW pair
homologous
IL_4V88_470
NA
IL_3JAQ_0801/2/1667:1670,
1/2/1727:1730		Double sheared
homologous
IL_4V88_471
NA
IL_3JAQ_0811/2/1673:1676,
1/2/1721:1724		Tandem non-canonical cWW pairs
geometric
IL_4V88_473
NA
IL_3JAQ_0821/2/1676:1680,
1/2/1717:1721		Triple sheared
homologous
IL_4V88_474
NA

Problematic loops

#loop idProblemSequence
IL_3JAQ_006Triple sheared related
IL_3JAQ_037Tandem non-canonical cWW pairs
IL_3JAQ_060No text annotation
IL_3JAQ_070No text annotation
IL_3JAQ_083No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_3JAQ_0011/2/41:42,
1/2/432:438,
1/2/463:465		No text annotation
homologous
J3_8CRE_071
J3_67856.4
J3_3JAQ_0021/2/632:634,
1/2/860:865,
1/2/961:965		No text annotation
homologous
J3_8C3A_034
NA
J3_3JAQ_0041/2/1036:1038,
1/2/1078:1082,
1/2/1089:1093		No text annotation
homologous
J3_4V88_034
NA
J3_3JAQ_0051/2/1160:1163,
1/2/1579:1585,
1/2/1607:1614		No text annotation
J3_3JAQ_0061/2/1167:1170,
1/2/1466:1468,
1/2/1572:1575		No text annotation
homologous
J3_8C3A_039
NA
J3_3JAQ_0071/2/1179:1186,
1/2/1197:1208,
1/2/1452:1456		No text annotation
homologous
J3_8CRE_080
J3_83516.4
J3_3JAQ_0101/2/1291:1293,
1/2/1302:1305,
1/2/1317:1322		No text annotation
J3_3JAQ_0111/2/1335:1337,
1/2/1384:1387,
1/2/1410:1413		No text annotation
homologous
J3_8C3A_043
NA
J3_3JAQ_0121/2/1468:1472,
1/2/1531:1538,
1/2/1569:1572		No text annotation
homologous
J3_4V88_041
NA

Problematic loops

#loop idProblemSequence
J3_3JAQ_003No text annotation
J3_3JAQ_008No text annotation
J3_3JAQ_009No text annotation

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